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producing strandedness metrics from rnaseq data Answered
- AMN
- July 02, 2021 16:45
0 votes 1 comment
--dbsnp option in HaplotypeCaller and other programs Answered
- gwotto
- July 01, 2021 12:21
0 votes 3 comments
Using -"-allow-old-rms-mapping-quality-annotation-data" to force genotyping gvcf created with old version Answered
- Muriel Gros-Balthazard
- June 25, 2021 08:54
0 votes 1 comment
Theorical model for Active region detection Answered
- Naomie Abecassis
- June 22, 2021 14:26
0 votes 6 comments
What does PCT_MIX from CreateVerifyIDIntensityContaminationMetricsFile mean?
- Lucas Taniguti
- June 21, 2021 13:40
0 votes 2 comments
MTLowHeteroplasmyFilterTool documentation Answered
- jorgez
- June 11, 2021 12:58
0 votes 7 comments
Confirmation that Mutect2 /haplotype caller only use reads mapped within the active region
- JW
- June 03, 2021 16:19
1 vote 3 comments
Is it okay to run multiple instances of BQSR with the -L argument in order to increase the speed of the workflow? Answered
- Jenifer
- May 24, 2021 11:44
0 votes 1 comment
I have question about stats file after using mutect2 Answered
- 황신원
- May 21, 2021 00:56
0 votes 1 comment
Ploidy as an argument in Mutect2 Answered
- Michael Weinstein
- May 21, 2021 00:46
0 votes 5 comments
Calculation method of the global_read_depth.tsv file of the DetermineGermlineContigPloidy tool Answered
- Tintest
- May 20, 2021 14:35
0 votes 7 comments
How do I calculate QD for multiple samples, if all samples are homozygous? Answered
- Martin Grasshoff
- May 19, 2021 16:02
0 votes 1 comment
STRANDQ missing from mutect2 vcf records Answered
- Rebecca Halperin
- May 12, 2021 19:26
0 votes 6 comments
What is the difference between "CNVSomaticPairWorkflow.common_sites" and "CNVSomaticPairWorkflow.intervals"? Answered
- Hiro Ama
- May 12, 2021 07:18
0 votes 2 comments
VariantRecalibrator latest recommandations Answered
- nhaus
- May 04, 2021 15:48
0 votes 3 comments
gatk FilterByOrientationBias Answered
- Nishtha Tanwar
- May 04, 2021 09:15
0 votes 2 comments
GenomicsDBImport java error
- TONG ZHOU TAO
- May 04, 2021 06:33
0 votes 1 comment
GATK VariantEval no concordance between dbSNP and our data Answered
- Pierre_Bioinfo
- May 03, 2021 07:50
0 votes 6 comments
What does mutect2 do if two bams are input and --normal-sample is not specified? Answered
- Tyler Borrman
- April 27, 2021 05:07
- Edited
0 votes 1 comment
ApplyBQSRSpark ApplyBQSR has different results
- AMN
- April 22, 2021 15:40
- Edited
0 votes 3 comments
GC DROPOUT AND AT DROPOUT Answered
- asqt96
- April 22, 2021 13:16
0 votes 1 comment
Determining Optimal Number of Samples to include in Panel of Normal Answered
- Gannon Cottone
- April 16, 2021 16:56
0 votes 2 comments
every exon junctions in Bam files got softclipped after run SplitNCigarReads Answered
- 이한새
- July 21, 2021 00:49
- Edited
0 votes 4 comments
How does Picard basecalling make decisions on NovaSeq data? Answered
- James Webber
- April 14, 2021 17:12
0 votes 4 comments
If base quality scores set at 2 for clipped regions are restored to the original score with MergeBamAlignment, how will clipped regions not contribute to downstream analyses? Planned
- ISmolicz
- April 07, 2021 15:07
- Edited
0 votes 0 comments
How do adapter sequences not contribute to alignment if the base quality is set to 2 with SamToFastq but BWA-MEM does not consider base quality scores? Answered
- ISmolicz
- April 07, 2021 14:37
- Edited
0 votes 5 comments
GATK 4.2.0.0 Haplotype caller --genotyping_mode DISCOVERY Option Answered
- M.R-E.H
- April 07, 2021 11:30
0 votes 2 comments
Error remove 0x1 from alternate contigs tutorial Answered
- Linda Do
- April 05, 2021 16:18
0 votes 5 comments
CreateSomaticPanelOfNormals BETA tag Answered
- G E
- April 01, 2021 19:38
0 votes 2 comments
Sensitivity analysis for GATK CNV PoN Answered
- Kimal Rajapakshe
- March 29, 2021 21:51
0 votes 1 comment

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