Available Modules
Modules are the building stones of all DSL2 nf-core blocks. You can find more info from nf-core website, if you would like to write your own module.
- bam 0
- fasta 0
- fastq 0
- vcf 0
- genomics 0
- metagenomics 0
- genome 0
- index 0
- alignment 0
- reference 0
- gatk4 0
- bed 0
- assembly 0
- cram 0
- sam 0
- sort 0
- variant calling 0
- annotation 0
- structural variants 0
- align 0
- database 0
- merge 0
- filter 0
- gff 0
- map 0
- bacteria 0
- statistics 0
- coverage 0
- qc 0
- variants 0
- quality control 0
- gtf 0
- classify 0
- nanopore 0
- download 0
- cnv 0
- split 0
- taxonomic profiling 0
- k-mer 0
- contamination 0
- gfa 0
- variant 0
- MSA 0
- sentieon 0
- somatic 0
- pacbio 0
- taxonomy 0
- classification 0
- convert 0
- count 0
- binning 0
- quality 0
- single-cell 0
- proteomics 0
- clustering 0
- ancient DNA 0
- VCF 0
- copy number 0
- imputation 0
- contigs 0
- bedtools 0
- conversion 0
- phylogeny 0
- bisulfite 0
- variation graph 0
- trimming 0
- isoseq 0
- sv 0
- graph 0
- gvcf 0
- reporting 0
- bcftools 0
- kmer 0
- databases 0
- illumina 0
- table 0
- consensus 0
- QC 0
- indexing 0
- protein 0
- rnaseq 0
- compression 0
- methylation 0
- wgs 0
- methylseq 0
- bisulphite 0
- cna 0
- build 0
- picard 0
- bqsr 0
- stats 0
- imaging 0
- demultiplex 0
- mapping 0
- phage 0
- long-read 0
- tsv 0
- metrics 0
- 5mC 0
- serotype 0
- visualisation 0
- antimicrobial resistance 0
- sequences 0
- amr 0
- base quality score recalibration 0
- expression 0
- cluster 0
- aDNA 0
- matrix 0
- bins 0
- plink 0
- structure 0
- pangenome graph 0
- protein sequence 0
- pairs 0
- plot 0
- depth 0
- neural network 0
- scWGBS 0
- WGBS 0
- openms 0
- DNA methylation 0
- markduplicates 0
- haplotype 0
- searching 0
- histogram 0
- samtools 0
- iCLIP 0
- cooler 0
- machine learning 0
- search 0
- db 0
- virus 0
- low-coverage 0
- validation 0
- completeness 0
- metagenome 0
- checkm 0
- annotate 0
- transcript 0
- filtering 0
- repeat 0
- bcf 0
- aligner 0
- bisulfite sequencing 0
- biscuit 0
- bwa 0
- mappability 0
- mmseqs2 0
- archaeogenomics 0
- palaeogenomics 0
- LAST 0
- genotype 0
- damage 0
- gene 0
- transcriptome 0
- peaks 0
- dedup 0
- complexity 0
- msa 0
- kraken2 0
- umi 0
- newick 0
- mag 0
- blast 0
- mags 0
- evaluation 0
- spatial 0
- phasing 0
- gff3 0
- population genetics 0
- bismark 0
- decompression 0
- seqkit 0
- genotyping 0
- long reads 0
- hmmsearch 0
- segmentation 0
- mkref 0
- glimpse 0
- example 0
- ncbi 0
- germline 0
- ucsc 0
- sequence 0
- scRNA-seq 0
- multiple sequence alignment 0
- feature 0
- bedGraph 0
- mitochondria 0
- vsearch 0
- duplicates 0
- mirna 0
- antimicrobial peptides 0
- demultiplexing 0
- cnvkit 0
- snp 0
- prokaryote 0
- json 0
- report 0
- plasmid 0
- splicing 0
- single 0
- hmmer 0
- NCBI 0
- antimicrobial resistance genes 0
- short-read 0
- gzip 0
- prediction 0
- differential 0
- pangenome 0
- kmers 0
- tumor-only 0
- deduplication 0
- low frequency variant calling 0
- microbiome 0
- svtk 0
- mutect2 0
- antibiotic resistance 0
- single cell 0
- MAF 0
- counts 0
- visualization 0
- mem 0
- kallisto 0
- isolates 0
- extract 0
- wxs 0
- 3-letter genome 0
- amps 0
- de novo 0
- riboseq 0
- benchmark 0
- view 0
- text 0
- merging 0
- interval 0
- csv 0
- idXML 0
- mpileup 0
- de novo assembly 0
- ptr 0
- coptr 0
- adapters 0
- summary 0
- query 0
- fragment 0
- diversity 0
- arg 0
- indels 0
- clipping 0
- detection 0
- tabular 0
- sourmash 0
- call 0
- deamination 0
- hybrid capture sequencing 0
- copy number alteration calling 0
- targeted sequencing 0
- gsea 0
- deep learning 0
- quantification 0
- genome assembler 0
- isomir 0
- fgbio 0
- miscoding lesions 0
- DNA sequencing 0
- bin 0
- palaeogenetics 0
- archaeogenetics 0
- compress 0
- sample 0
- malt 0
- containment 0
- sequencing 0
- SV 0
- CLIP 0
- public datasets 0
- bcl2fastq 0
- parsing 0
- circrna 0
- snps 0
- read depth 0
- phylogenetic placement 0
- bigwig 0
- microarray 0
- STR 0
- ampir 0
- cut 0
- diamond 0
- structural 0
- hic 0
- fastx 0
- ancestry 0
- profile 0
- reference-free 0
- xeniumranger 0
- bedgraph 0
- sketch 0
- ngscheckmate 0
- HiFi 0
- fungi 0
- normalization 0
- ATAC-seq 0
- bgzip 0
- interval_list 0
- pypgx 0
- compare 0
- resistance 0
- haplotypecaller 0
- happy 0
- add 0
- matching 0
- microsatellite 0
- union 0
- ont 0
- peak-calling 0
- umitools 0
- retrotransposon 0
- ccs 0
- ranking 0
- genmod 0
- telomere 0
- hmmcopy 0
- family 0
- enrichment 0
- ganon 0
- FASTQ 0
- logratio 0
- concatenate 0
- taxonomic classification 0
- DNA sequence 0
- redundancy 0
- propr 0
- reads 0
- BGC 0
- profiling 0
- preprocessing 0
- chunk 0
- biosynthetic gene cluster 0
- paf 0
- genome assembly 0
- dna 0
- das_tool 0
- transposons 0
- score 0
- bacterial 0
- chimeras 0
- mzml 0
- fingerprint 0
- cfDNA 0
- genomes 0
- ligate 0
- PacBio 0
- deeparg 0
- organelle 0
- kinship 0
- identity 0
- gridss 0
- vrhyme 0
- HMM 0
- gatk4spark 0
- informative sites 0
- mapper 0
- transcripts 0
- PCA 0
- subsample 0
- RNA 0
- archiving 0
- windowmasker 0
- reports 0
- krona chart 0
- panel 0
- dictionary 0
- fam 0
- bim 0
- pseudoalignment 0
- amplicon sequences 0
- fastk 0
- replace 0
- entrez 0
- insert 0
- krona 0
- genotype-based deconvoltion 0
- variant_calling 0
- spark 0
- html 0
- UMI 0
- survivor 0
- tabix 0
- wastewater 0
- small indels 0
- structural_variants 0
- npz 0
- minimap2 0
- zip 0
- unzip 0
- transcriptomics 0
- uncompress 0
- untar 0
- rna_structure 0
- guide tree 0
- SNP 0
- amplicon sequencing 0
- long_read 0
- uLTRA 0
- lineage 0
- pairsam 0
- mtDNA 0
- pan-genome 0
- covid 0
- plink2 0
- mlst 0
- pangolin 0
- spaceranger 0
- typing 0
- notebook 0
- indel 0
- scores 0
- das tool 0
- hi-c 0
- fai 0
- duplication 0
- chromosome 0
- comparisons 0
- combine 0
- observations 0
- bracken 0
- abundance 0
- aln 0
- bwameth 0
- rsem 0
- lossless 0
- popscle 0
- C to T 0
- cat 0
- nucleotide 0
- image 0
- mkfastq 0
- cellranger 0
- gene expression 0
- miRNA 0
- kraken 0
- microbes 0
- checkv 0
- atac-seq 0
- chip-seq 0
- wig 0
- intervals 0
- converter 0
- rna 0
- repeat expansion 0
- virulence 0
- macrel 0
- amplify 0
- neubi 0
- DRAMP 0
- angsd 0
- genome mining 0
- prokaryotes 0
- eukaryotes 0
- fusion 0
- arriba 0
- ataqv 0
- image_analysis 0
- roh 0
- mcmicro 0
- highly_multiplexed_imaging 0
- fcs-gx 0
- bakta 0
- clean 0
- host 0
- bamtools 0
- pileup 0
- adapter trimming 0
- quality trimming 0
- remove 0
- shapeit 0
- complement 0
- png 0
- benchmarking 0
- polishing 0
- ambient RNA removal 0
- relatedness 0
- prokka 0
- prefetch 0
- CRISPR 0
- cool 0
- cut up 0
- dump 0
- bfiles 0
- mudskipper 0
- hlala 0
- hla 0
- link 0
- dict 0
- collate 0
- transcriptomic 0
- heatmap 0
- hlala_typing 0
- xenograft 0
- vg 0
- graft 0
- gene labels 0
- removal 0
- join 0
- vcflib 0
- hla_typing 0
- regions 0
- trancriptome 0
- bedpe 0
- correction 0
- instability 0
- ichorcna 0
- msi 0
- cleaning 0
- screening 0
- tumor 0
- sequenzautils 0
- mapcounter 0
- hidden Markov model 0
- orthology 0
- parallelized 0
- micro-satellite-scan 0
- mask 0
- fixmate 0
- msisensor-pro 0
- xz 0
- tama 0
- reformatting 0
- scatter 0
- intersect 0
- cancer genomics 0
- ChIP-seq 0
- normalize 0
- norm 0
- retrotransposons 0
- long terminal repeat 0
- reheader 0
- dereplicate 0
- genomad 0
- doublets 0
- long terminal retrotransposon 0
- graph layout 0
- snpsift 0
- kma 0
- gem 0
- tbi 0
- concat 0
- archive 0
- COBS 0
- gstama 0
- nextclade 0
- bam2fq 0
- gene set 0
- trim 0
- gene set analysis 0
- Streptococcus pneumoniae 0
- k-mer index 0
- emboss 0
- bloom filter 0
- phase 0
- purge duplications 0
- concordance 0
- function 0
- ancient dna 0
- anndata 0
- MSI 0
- somatic variants 0
- switch 0
- mitochondrion 0
- registration 0
- lofreq 0
- HOPS 0
- serogroup 0
- profiles 0
- barcode 0
- primer 0
- resolve_bioscience 0
- MaltExtract 0
- authentication 0
- spatial_transcriptomics 0
- edit distance 0
- sra-tools 0
- pair 0
- transformation 0
- mRNA 0
- image_processing 0
- rename 0
- krakenuniq 0
- fusions 0
- megan 0
- checksum 0
- varcal 0
- salmonella 0
- SimpleAF 0
- tree 0
- gwas 0
- minhash 0
- contig 0
- structural-variant calling 0
- mash 0
- GC content 0
- seqtk 0
- distance 0
- allele 0
- fasterq-dump 0
- interactive 0
- nanostring 0
- trgt 0
- refine 0
- multiallelic 0
- small variants 0
- simulate 0
- rgfa 0
- artic 0
- polyA_tail 0
- aggregate 0
- demultiplexed reads 0
- small genome 0
- spatial_omics 0
- maximum likelihood 0
- iphop 0
- tnhaplotyper2 0
- corrupted 0
- instrain 0
- homoploymer 0
- RNA-Seq 0
- random forest 0
- nacho 0
- comparison 0
- secondary metabolites 0
- krakentools 0
- settings 0
- proportionality 0
- NRPS 0
- RiPP 0
- screen 0
- cnvnator 0
- soft-clipped clusters 0
- khmer 0
- nucleotides 0
- bustools 0
- antibiotics 0
- metagenomes 0
- antismash 0
- RNA-seq 0
- scaffolding 0
- pharokka 0
- estimation 0
- microbial 0
- runs_of_homozygosity 0
- interactions 0
- realignment 0
- eido 0
- regression 0
- cnv calling 0
- format 0
- FracMinHash sketch 0
- zlib 0
- samplesheet 0
- deconvolution 0
- bayesian 0
- standardization 0
- validate 0
- differential expression 0
- de novo assembler 0
- calling 0
- immunoprofiling 0
- standardisation 0
- BAM 0
- blastn 0
- evidence 0
- genetics 0
- taxon tables 0
- effect prediction 0
- otu tables 0
- standardise 0
- adapter 0
- functional analysis 0
- filtermutectcalls 0
- Duplication purging 0
- read-group 0
- interval list 0
- taxonomic profile 0
- allele-specific 0
- CNV 0
- svdb 0
- panelofnormals 0
- repeat_expansions 0
- import 0
- polish 0
- metagenomic 0
- identifier 0
- cvnkit 0
- expansionhunterdenovo 0
- MCMICRO 0
- RNA sequencing 0
- scaffold 0
- metadata 0
- repeats 0
- parse 0
- ome-tif 0
- eCLIP 0
- tab 0
- mirdeep2 0
- amptransformer 0
- variation 0
- unaligned 0
- merge mate pairs 0
- reads merging 0
- short reads 0
- smrnaseq 0
- eigenstrat 0
- vdj 0
- signature 0
- UMIs 0
- ampgram 0
- Read depth 0
- duplex 0
- duplicate 0
- single cells 0
- genome bins 0
- fetch 0
- GEO 0
- ped 0
- proteome 0
- joint genotyping 0
- pharmacogenetics 0
- gatk 0
- snpeff 0
- rtgtools 0
- preseq 0
- GPU-accelerated 0
- Pharmacogenetics 0
- baf 0
- recombination 0
- junctions 0
- leviosam2 0
- library 0
- intersection 0
- awk 0
- sequence analysis 0
- lift 0
- salmon 0
- deseq2 0
- shigella 0
- blastp 0
- variant pruning 0
- metamaps 0
- rna-seq 0
- windows 0
- orf 0
- long-read sequencing 0
- frame-shift correction 0
- short-read sequencing 0
- seq 0
- spatype 0
- rare variants 0
- all versus all 0
- sha256 0
- ucsc/liftover 0
- variantcalling 0
- usearch 0
- long read alignment 0
- gtftogenepred 0
- pangenome-scale 0
- downsample bam 0
- sccmec 0
- POA 0
- 256 bit 0
- refflat 0
- detecting svs 0
- rRNA 0
- mashmap 0
- gender determination 0
- snv 0
- sequence headers 0
- upd 0
- yahs 0
- copy number variation 0
- sertotype 0
- copy number alterations 0
- error 0
- hash sketch 0
- signatures 0
- files 0
- de-novo 0
- scRNA-Seq 0
- spa 0
- umicollapse 0
- copy number analysis 0
- streptococcus 0
- sniffles 0
- fracminhash sketch 0
- core 0
- copy-number 0
- interleave 0
- downsample 0
- wham 0
- whamg 0
- header 0
- shinyngs 0
- wavefront 0
- longread 0
- dbnsfp 0
- SMN2 0
- relative coverage 0
- VCFtools 0
- disomy 0
- pseudodiploid 0
- lua 0
- gc_wiggle 0
- sliding window 0
- toml 0
- dist 0
- freqsum 0
- sequencing adapters 0
- vcfbreakmulti 0
- density 0
- uniq 0
- deduplicate 0
- Mycobacterium tuberculosis 0
- bigbed 0
- invariant 0
- chromosomal rearrangements 0
- eucaryotes 0
- ribosomal RNA 0
- verifybamid 0
- DNA contamination estimation 0
- geo 0
- bam2seqz 0
- SNPs 0
- graph projection to vcf 0
- transcroder 0
- cds 0
- construct 0
- features 0
- bedgraphtobigwig 0
- boxplot 0
- snippy 0
- rdtest 0
- vsearch/sort 0
- genetic sex 0
- subsample bam 0
- coding 0
- svtk/baftest 0
- baftest 0
- vcf2db 0
- countsvtypes 0
- sintax 0
- constant 0
- sex determination 0
- selection 0
- SMN1 0
- rdtest2vcf 0
- exploratory 0
- pseudohaploid 0
- induce 0
- vcf2bed 0
- decompress 0
- genepred 0
- polya tail 0
- gemini 0
- CRAM 0
- bedtobigbed 0
- predictions 0
- maf 0
- linkbins 0
- random draw 0
- extractunbinned 0
- fast5 0
- uniparental 0
- search engine 0
- mapad 0
- uniques 0
- orthogroup 0
- orthologs 0
- sage 0
- mass spectrometry 0
- featuretable 0
- extraction 0
- cgMLST 0
- WGS 0
- redundant 0
- nanoq 0
- Read filters 0
- Read trimming 0
- Read report 0
- drug categorization 0
- Illumina 0
- circular 0
- functional 0
- impute-info 0
- tags 0
- tag2tag 0
- hashing-based deconvolution 0
- rank 0
- java 0
- script 0
- xml 0
- svg 0
- standard 0
- haplotag 0
- staging 0
- Staging 0
- spot 0
- realign 0
- multiqc 0
- trimfq 0
- hashing-based deconvoltion 0
- gnu 0
- coreutils 0
- generic 0
- transposable element 0
- retrieval 0
- MMseqs2 0
- InterProScan 0
- busco 0
- droplet based single cells 0
- lexogen 0
- genotype-based demultiplexing 0
- donor deconvolution 0
- cellsnp 0
- vcflib/vcffixup 0
- quality check 0
- AC/NS/AF 0
- Pacbio 0
- guidetree 0
- bwamem2 0
- bwameme 0
- grabix 0
- ribosomal 0
- 10x 0
- regulatory network 0
- transcription factors 0
- paraphase 0
- selector 0
- cram-size 0
- size 0
- microRNA 0
- mass_error 0
- check 0
- recovery 0
- nuclear segmentation 0
- cell segmentation 0
- relabel 0
- resegment 0
- morphology 0
- hostile 0
- decontamination 0
- human removal 0
- metagenome assembler 0
- scanpy 0
- plotting 0
- regtools 0
- leafcutter 0
- split_kmers 0
- mgi 0
- solo 0
- sylph 0
- identity-by-descent 0
- decomposeblocksub 0
- block substitutions 0
- pdb 0
- run 0
- updatedata 0
- chip 0
- partitioning 0
- malformed 0
- fix 0
- paired reads re-pairing 0
- regex 0
- patterns 0
- import segmentation 0
- scvi 0
- poolseq 0
- targz 0
- variant-calling 0
- stardist 0
- telseq 0
- vsearch/dereplicate 0
- vsearch/fastqfilter 0
- fastqfilter 0
- ATACseq 0
- shift 0
- ATACshift 0
- setgt 0
- jvarkit 0
- translate 0
- tar 0
- tarball 0
- bclconvert 0
- p-value 0
- nucBed 0
- AT content 0
- nucleotide content 0
- elfasta 0
- elprep 0
- controlstatistics 0
- source tracking 0
- emoji 0
- quality_control 0
- doublet_detection 0
- barcodes 0
- subsetting 0
- logFC 0
- significance statistic 0
- hamming-distance 0
- overlap-based merging 0
- adna 0
- rad 0
- decoy 0
- htseq 0
- rrna 0
- sompy 0
- peak picking 0
- site frequency spectrum 0
- ancestral alleles 0
- derived alleles 0
- tnfilter 0
- array_cgh 0
- cytosure 0
- vector 0
- gprofiler2 0
- gost 0
- structural variant 0
- genome graph 0
- bam2fastx 0
- bam2fastq 0
- immcantation 0
- airrseq 0
- immunoinformatics 0
- co-orthology 0
- homology 0
- sequence similarity 0
- spectral clustering 0
- comparative genomics 0
- deep variant 0
- mutect 0
- idx 0
- transform 0
- tnseq 0
- transmembrane 0
- introns 0
- dnascope 0
- c to t 0
- proteus 0
- readproteingroups 0
- eigenvectors 0
- hicPCA 0
- sliding 0
- snakemake 0
- workflow 0
- workflow_mode 0
- createreadcountpanelofnormals 0
- copyratios 0
- denoisereadcounts 0
- readwriter 0
- dnamodelapply 0
- groupby 0
- decompose 0
- tnscope 0
- bgen 0
- chloroplast 0
- confidence 0
- blat 0
- alr 0
- clr 0
- boxcox 0
- Escherichia coli 0
- propd 0
- Read coverage histogram 0
- reverse complement 0
- simulation 0
- hmmfetch 0
- gaps 0
- install 0
- paired reads merging 0
- biological activity 0
- cell_type_identification 0
- cell_phenotyping 0
- machine_learning 0
- clahe 0
- refresh 0
- association 0
- GWAS 0
- case/control 0
- associations 0
- spatial_neighborhoods 0
- scimap 0
- Bayesian 0
- structural-variants 0
- omics 0
- prior knowledge 0
- seqfu 0
- tag 0
- cell_barcodes 0
- mygene 0
- go 0
- pile up 0
- taxids 0
- taxon name 0
- nanopore sequencing 0
- rna velocity 0
- cobra 0
- extension 0
- grea 0
- functional enrichment 0
- translation 0
- n50 0
- probabilistic realignment 0
- joint-genotyping 0
- coexpression 0
- genotypegvcf 0
- parallel 0
- plastid 0
- resfinder 0
- resistance genes 0
- raw 0
- mgf 0
- parquet 0
- parser 0
- dbsnp 0
- standardize 0
- quarto 0
- python 0
- r 0
- correlation 0
- liftover 0
- predict 0
- collapse 0
- genotype likelihood 0
- reference-independent 0
- hwe equilibrium 0
- hwe statistics 0
- hardy-weinberg 0
- multi-tool 0
- corpcor 0
- homologs 0
- nucleotide sequence 0
- distance-based 0
- minimum_evolution 0
- phylogenetics 0
- assay 0
- grep 0
- DNA damage 0
- subseq 0
- annotateintervals 0
- lint 0
- fq 0
- rust 0
- variant caller 0
- somatic variant calling 0
- germline variant calling 0
- bacterial variant calling 0
- bootstrapping 0
- UShER 0
- gamma 0
- gene-calling 0
- gangstr 0
- heattree 0
- targets 0
- variant quality score recalibration 0
- generate 0
- vqsr 0
- asereadcounter 0
- bedtointervallist 0
- calculatecontamination 0
- cross-samplecontamination 0
- getpileupsummaries 0
- calibratedragstrmodel 0
- cnnscorevariants 0
- collectreadcounts 0
- collectsvevidence 0
- combinegvcfs 0
- short variant discovery 0
- composestrtablefile 0
- dragstr 0
- random 0
- single molecule 0
- createsequencedictionary 0
- Streptococcus pyogenes 0
- structural variation 0
- depth information 0
- escherichia coli 0
- PEP 0
- schema 0
- pep 0
- eigenstratdatabasetools 0
- eklipse 0
- circos 0
- deletion 0
- split by chromosome 0
- embl 0
- genbank 0
- swissprot 0
- endogenous DNA 0
- zipperbams 0
- ENA 0
- ubam 0
- unmapped 0
- groupreads 0
- duplexumi 0
- consensus sequence 0
- public 0
- SRA 0
- percent on target 0
- ANI 0
- ARGs 0
- antibiotic resistance genes 0
- faqcs 0
- str 0
- cache 0
- condensedepthevidence 0
- createsomaticpanelofnormals 0
- segment 0
- repeat content 0
- svannotate 0
- svcluster 0
- variantfiltration 0
- recalibration model 0
- variantrecalibrator 0
- gawk 0
- txt 0
- file parsing 0
- bgc 0
- genome profile 0
- compound 0
- models 0
- genome size 0
- genome heterozygosity 0
- Salmonella Typhi 0
- splitcram 0
- Mykrobe 0
- gfastats 0
- genome summary 0
- genome manipulation 0
- genome statistics 0
- gget 0
- low coverage 0
- Sample 0
- Haplotypes 0
- Imputation 0
- joint-variant-calling 0
- GNU 0
- merge compare 0
- genomes on a tree 0
- splitintervals 0
- site depth 0
- determinegermlinecontigploidy 0
- readcountssummary 0
- duplication metrics 0
- estimatelibrarycomplexity 0
- filterintervals 0
- filtervarianttranches 0
- tranche filtering 0
- gatherbqsrreports 0
- genomicsdb 0
- genomicsdbimport 0
- jointgenotyping 0
- panelofnormalscreation 0
- germline contig ploidy 0
- germlinecnvcaller 0
- germlinevariantsites 0
- getpileupsumaries 0
- indexfeaturefile 0
- shiftintervals 0
- printreads 0
- shiftfasta 0
- shiftchain 0
- selectvariants 0
- revert 0
- reblockgvcf 0
- printsvevidence 0
- preprocessintervals 0
- learnreadorientationmodel 0
- postprocessgermlinecnvcalls 0
- snvs 0
- mutectstats 0
- mergebamalignment 0
- leftalignandtrimvariants 0
- readorientationartifacts 0
- duphold 0
- blastx 0
- gene model 0
- csi 0
- bacphlip 0
- mouse 0
- bamtools/convert 0
- yaml 0
- bamtools/split 0
- bamUtil 0
- trimBam 0
- element 0
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- microscopy 0
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- BCF 0
- temperate 0
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- biallelic 0
- homozygosity 0
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- reference panels 0
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- amp 0
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- model 0
- post Post-processing 0
- nuclear contamination estimate 0
- allele counts 0
- installation 0
- autofluorescence 0
- bias 0
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- utility 0
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- cload 0
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- genomic bins 0
- UNet 0
- protein coding genes 0
- TMA dearray 0
- Segmentation 0
- Cores 0
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- version 0
- na 0
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- track 0
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- polymorphic sites 0
- sizes 0
- compartments 0
- bases 0
- slopBed 0
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- unionBedGraphs 0
- bioawk 0
- file manipulation 0
- sorted 0
- Salmonella enterica 0
- subtyping 0
- tblastn 0
- postprocessing 0
- cadd 0
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- topology 0
- domains 0
- polymorphic 0
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- quality assurnce 0
- crispr 0
- Assembly 0
- antibody capture 0
- antigen capture 0
- multiomics 0
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- cellpose 0
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- TAMA 0
- variant recalibration 0
- RAMPAGE 0
- hybrid-selection 0
- mate-pair 0
- liftovervcf 0
- pcr 0
- picard/renamesampleinvcf 0
- sortvcf 0
- deletions 0
- insertions 0
- tandem duplications 0
- CoPRO 0
- GRO-cap 0
- PRO-cap 0
- CAGE 0
- NETCAGE 0
- csRNA-seq 0
- illumina datasets 0
- STRIPE-seq 0
- PRO-seq 0
- GRO-seq 0
- genetic 0
- exclude 0
- variant identifiers 0
- subset 0
- indep 0
- indep pairwise 0
- recode 0
- whole genome association 0
- identifiers 0
- scoring 0
- variant genetic 0
- phylogenetic composition 0
- identification 0
- porechop_abi 0
- ligation junctions 0
- odgi 0
- combine graphs 0
- graph stats 0
- graph unchopping 0
- graph formats 0
- graph viz 0
- tumor/normal 0
- hla-typing 0
- ILP 0
- HLA-I 0
- block-compressed 0
- PCR/optical duplicates 0
- flip 0
- upper-triangular matrix 0
- pairtools 0
- prophage 0
- pbp 0
- phantom peaks 0
- ChIP-Seq 0
- motif 0
- pedigrees 0
- read 0
- pair-end 0
- subreads 0
- pairstools 0
- pbmerge 0
- pbbam 0
- graphs 0
- paragraph 0
- select 0
- restriction fragments 0
- pmdtools 0
- contact 0
- graph drawing 0
- insert size 0
- rocplot 0
- rtg-tools 0
- salsa 0
- salsa2 0
- LCA 0
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- repair 0
- rtg 0
- paired 0
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- chromatin 0
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- integrity 0
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- cutoff 0
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- false duplications 0
- assembly curation 0
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- purging 0
- R 0
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- long uncorrected reads 0
- subsampling 0
- neighbour-joining 0
- quast 0
- squeeze 0
- graph construction 0
- gstama/merge 0
- papermill 0
- genome browser 0
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- pixel classification 0
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- population genomics 0
- interproscan 0
- genomic islands 0
- insertion 0
- jasminesv 0
- jasmine 0
- Python 0
- Jupyter 0
- jupytext 0
- kallisto/index 0
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- quant 0
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- k-mer counting 0
- effective genome size 0
- Klebsiella 0
- pneumoniae 0
- kegg 0
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- combining 0
- reorder 0
- spliced 0
- train 0
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- collapsing 0
- js 0
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- clinical 0
- hbd 0
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- genome taxonomy database 0
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- amrfinderplus 0
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- rgi 0
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- beagle 0
- IDR 0
- amino acid 0
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- haemophilus 0
- pos 0
- annotations 0
- hmtnote 0
- Hidden Markov Model 0
- HMMER 0
- mitochondrial 0
- reformat 0
- readcounter 0
- gccounter 0
- haplotype resolution 0
- Haemophilus influenzae 0
- haplogroups 0
- legionella 0
- pneumophila 0
- gender 0
- microsatellite instability 0
- smudgeplot 0
- ploidy 0
- unionsum 0
- metaphlan 0
- methylation bias 0
- mbias 0
- assembler 0
- de Bruijn 0
- microrna 0
- target prediction 0
- mitochondrial genome 0
- reference genome 0
- mosdepth 0
- otu table 0
- scan 0
- Merqury 0
- cancer genome 0
- Neisseria gonorrhoeae 0
- ngm 0
- NextGenMap 0
- sequencing summary 0
- mobile element insertions 0
- somatic structural variations 0
- contaminant 0
- mtnucratio 0
- SNP table 0
- GATK UnifiedGenotyper 0
- Beautiful stand-alone HTML report 0
- bioinformatics tools 0
- mitochondrial to nuclear ratio 0
- ratio 0
- assembly evaluation 0
- contour map 0
- limma 0
- taxonomic assignment 0
- Listeria monocytogenes 0
- lofreq/call 0
- lofreq/filter 0
- qualities 0
- AMP 0
- peptide prediction 0
- functional genomics 0
- sgRNA 0
- CRISPR-Cas9 0
- maximum-likelihood 0
- rra 0
- NGS 0
- damage patterns 0
- estimate 0
- mash/sketch 0
- 3D heat map 0
- megahit 0
- k-mer frequency 0
- Neisseria meningitidis 0
- rma6 0
- daa 0
- debruijn 0
- denovo 0
- 128 bit 0
- reduced 0
- MD5 0
- mcr-1 0
- mass-spectroscopy 0
- metagenome-assembled genomes 0
- maxbin2 0
- representations 0
- doublet 0
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