Description

Filter, sort and markdup sam/bam files, with optional BQSR and variant calling.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

3 ()

4 ()

5 ()

6 ()

0 ()

1 ()

0 ()

1 ()

0 ()

1 ()

0 ()

0 ()

0 ()

0 ()

0 ()

Output

Name
Description
Pattern

bam ()

logs ()

metrics ()

recall ()

gvcf ()

table ()

activity_profile ()

assembly_regions ()

versions ()

Tools

elprep Documentation

elPrep is a high-performance tool for preparing .sam/.bam files for variant calling in sequencing pipelines. It can be used as a drop-in replacement for SAMtools/Picard/GATK4.

doi: 10.1371/journal.pone.0244471License: AGPL v3
Authors