Description

Small and structural variant phasing tool for PacBio HiFi reads, supporting co-phasing of SNVs and SVs across multiple BAM files and samples

Input

Name
Description
Pattern

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0 ()

1 ()

2 ()

output_bam (boolean)

Whether to output haplotagged BAM files. Set to true to emit phased BAM files with haplotag information.

summary_file (boolean)

Whether to output a phasing summary file.

blocks_file (boolean)

Whether to output a phasing blocks file.

stats_file (boolean)

Whether to output a per-read phasing statistics file.

haplotag_file (boolean)

Whether to output a haplotag assignments file.

file_format (string)

Output file format for summary/blocks/stats/haplotag files, either 'tsv' or 'csv'.

Output

Name
Description
Pattern

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0 ()

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0 ()

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0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

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Tools

hiphase Documentation

Small and structural variant phasing tool for PacBio HiFi reads

License: Pacific Biosciences Software License Agreement
Authors