Tools Description
Versions of tools in order of process
Tool | Version |
FastqToBam (Fgbio) | 1.2.0 |
SamToFastq (Picard tools part of GATK) | 4.1.8.0 |
0.20.1 | |
4.1.8.0 | |
0.7.17 | |
AddOrReplaceReadGroups (Picard tools part of GATK) | 4.1.8.1 |
MergeBamAlignment (Picard tools part of GATK) | 4.1.8.0 |
MarkDuplicates (Picard tools part of GATK) | 4.1.8.1 |
GenomeCov (Bedtools) | 2.28.0_cv2 |
Merge (Bedtools) | 2.28.0_cv2 |
2.22 | |
FixMateInformation (Picard tools part of GATK) | 4.1.8.1 |
BaseRecalibrator (GATK) | 4.1.8.1 |
ApplyBQSR (GATK) | 4.1.8.1 |
GroupReadsByUmi (Fgbio) | 1.2.0 |
CollectDuplexSeqMetrics (Fgbio) | 1.2.0 |
CallDuplexConsensusReads (Fgbio) | 1.2.0 |
Fgbio FilterConsensusReads (Fgbio) | 1.2.0 |
0.1.8 | |
Picard CollectAlignmentSummaryMetrics (Picard tools part of GATK) | 4.1.8.0 |
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