fgbio release version 0.1.1
Release of fgbio
that contains tools:
HardMaskFasta
: Converts soft-masked sequence to hard-masked in a FASTA file.TrimFastq
: Trims reads in one or more line-matched fastq files to a specific read length.ExtractUmisFromBam
: Extracts unique molecular indexes from reads in a BAM file into tags.FindTechnicalReads
: Find reads that are from technical or synthetic sequences in a BAM file.RandomizeBam
: Randomizes the order of reads in a SAM or BAM file.SetMateInformation
: Adds and/or fixes mate information on paired-end reads.UpdateReadGroups
: Updates one or more read groups and their identifiers.CallMolecularConsensusReads
Calls consensus sequences from reads with the same unique molecular tag.GroupReadsByUmi
: Groups reads together that appear to have come from the same original molecule.HapCutToVcf
: Converts the output of HapCut to a VCF.