samtools-help

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2014/12/04 Re: [Samtools-help] CollectHiSeqXPfFailMetrics Error: Could not find a format with available files for the following data types: Position Kanterakis, Efstathios
2014/12/04 Re: [Samtools-help] RNEXT,PNEXT unmapped read Louis Letourneau
2014/12/04 Re: [Samtools-help] RNEXT,PNEXT unmapped read Peter Cock
2014/12/04 [Samtools-help] RNEXT,PNEXT unmapped read Louis Letourneau
2014/12/04 [Samtools-help] GCoverhead limit exceeded Sander van der Zeeuw
2014/12/04 [Samtools-help] Splitting multiallelic sites using "bcftools norm" Rasmus Borup Hansen
2014/12/03 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools L Rutter
2014/12/03 Re: [Samtools-help] Bcftools vcf2sex best practice Petr Danecek
2014/12/03 Re: [Samtools-help] Better management of exit code in samtools Radhouane Aniba
2014/12/03 Re: [Samtools-help] Better management of exit code in samtools John Marshall
2014/12/03 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools Jeff Gentry
2014/12/03 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools Nils Homer
2014/12/03 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools L Rutter
2014/12/03 Re: [Samtools-help] Better management of exit code in samtools Radhouane Aniba
2014/12/03 Re: [Samtools-help] Better management of exit code in samtools Heng Li
2014/12/03 [Samtools-help] Better management of exit code in samtools Radhouane Aniba
2014/12/03 [Samtools-help] Bcftools vcf2sex best practice Fengyuan Hu
2014/12/03 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools Jeff Gentry
2014/12/03 [Samtools-help] CollectHiSeqXPfFailMetrics Error: Could not find a format with available files for the following data types: Position Kanterakis, Efstathios
2014/12/03 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools L Rutter
2014/12/03 Re: [Samtools-help] "samtools cat" with one input file Dario Beraldi
2014/12/03 Re: [Samtools-help] "samtools cat" with one input file Peter Cock
2014/12/03 Re: [Samtools-help] "samtools cat" with one input file Dario Beraldi
2014/12/03 Re: [Samtools-help] "samtools cat" with one input file Devon Ryan
2014/12/03 [Samtools-help] "samtools cat" with one input file Dario Beraldi
2014/12/02 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools George Grant
2014/12/02 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools L Rutter
2014/12/02 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools Jeff Gentry
2014/12/02 Re: [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools Nils Homer
2014/12/02 [Samtools-help] RevertBam command in Picard-tools-1.126 threw exception Qingguo Wang
2014/12/01 [Samtools-help] Null pointer exception in CreateSequenceDictionary.jar from picard-tools L Rutter
2014/12/01 [Samtools-help] Picard Release 1.126 George Grant
2014/11/28 Re: [Samtools-help] Merge Multiple BAM Files yifeng
2014/11/28 Re: [Samtools-help] Merge Multiple BAM Files Devon Ryan
2014/11/28 [Samtools-help] Merge Multiple BAM Files yifeng
2014/11/27 [Samtools-help] 回复：Re: problem aqwxq063201
2014/11/27 [Samtools-help] samtools mpileup conflict between 0 and 1 versions Robert King (RRes-Roth)
2014/11/27 Re: [Samtools-help] problem Peter Cock
2014/11/27 Re: [Samtools-help] problem Sam Nicholls
2014/11/27 [Samtools-help] problem 王学强
2014/11/26 Re: [Samtools-help] Picard Samtofastq stalls Alec Wysoker
2014/11/25 Re: [Samtools-help] Picard Samtofastq stalls Stuti Agrawal
2014/11/25 Re: [Samtools-help] Picard Samtofastq stalls Alec Wysoker
2014/11/25 [Samtools-help] Picard Samtofastq stalls Stuti Agrawal
2014/11/25 Re: [Samtools-help] BQ0 in perfect read-pair overlap Petr Danecek
2014/11/25 Re: [Samtools-help] sort command Peter Cock
2014/11/25 Re: [Samtools-help] question about sort Devon Ryan
2014/11/25 Re: [Samtools-help] sort command john@home
2014/11/25 Re: [Samtools-help] sort command Peter Cock
2014/11/25 Re: [Samtools-help] question about sort Devon Ryan
2014/11/25 [Samtools-help] sort command john@home
2014/11/25 [Samtools-help] question about sort john@home
2014/11/24 Re: [Samtools-help] Picard/CleanSam.jar dubts antonio agraz
2014/11/24 Re: [Samtools-help] Picard/CleanSam.jar dubts Nils Homer
2014/11/24 [Samtools-help] Picard/CleanSam.jar dubts antonio agraz
2014/11/23 Re: [Samtools-help] IlluminaBasecallsToFastq on Nextseq run Nils Homer
2014/11/21 Re: [Samtools-help] IlluminaBasecallsToFastq on Nextseq run Langhorst, Brad
2014/11/21 Re: [Samtools-help] Number of variants in vcf.gz file Heng Li
2014/11/21 Re: [Samtools-help] Number of variants in vcf.gz file Tommy Carstensen
2014/11/20 [Samtools-help] BQ0 in perfect read-pair overlap Andreas Wilm
2014/11/20 Re: [Samtools-help] MergeBamAlignment issue w/ trailing /1? Nils Homer
2014/11/20 Re: [Samtools-help] Picard MarkDuplicates: mark or remove? Nils Homer
2014/11/20 Re: [Samtools-help] MergeBamAlignment issue w/ trailing /1? Ben Bimber
2014/11/20 Re: [Samtools-help] IlluminaBasecallsToFastq on Nextseq run Nils Homer
2014/11/20 Re: [Samtools-help] MergeBamAlignment issue w/ trailing /1? Nils Homer
2014/11/20 Re: [Samtools-help] picard CollectRnaSeqMetrics error: java.lang.NullPointerException Nils Homer
2014/11/20 [Samtools-help] IlluminaBasecallsToSam Header error Nacho Caballero
2014/11/20 Re: [Samtools-help] MarkDuplicates output Nils Homer
2014/11/20 [Samtools-help] version of gatk bundle for GRCh38? Alexey Larionov
2014/11/20 Re: [Samtools-help] samtools depth question: minQLen Peter Cock
2014/11/20 Re: [Samtools-help] samtools depth question: minQLen John Marshall
2014/11/19 [Samtools-help] Picard Release 1.125 George Grant
2014/11/19 Re: [Samtools-help] samtools depth question: minQLen Peter Cock
2014/11/19 Re: [Samtools-help] Number of variants in vcf.gz file Shane McCarthy
2014/11/19 Re: [Samtools-help] Number of variants in vcf.gz file Heng Li
2014/11/19 Re: [Samtools-help] samtools-1.1: rmdup error Peter Cock
2014/11/19 [Samtools-help] samtools-1.1: rmdup error mehar
2014/11/18 [Samtools-help] Picard MarkDuplicates: mark or remove? Katharine Walter
2014/11/18 [Samtools-help] VCF and edit operations Karel Břinda
2014/11/17 [Samtools-help] [SPAM] You still haven't accepted tangwei1...@gmail.com's friend request. Accept? tangwei1129
2014/11/17 [Samtools-help] Samtools/bcftools somatic calls Ogan
2014/11/16 [Samtools-help] tangwei1...@gmail.com has indicated you're a friend. Accept? tangwei1129
2014/11/13 Re: [Samtools-help] samtools mpileup -- error status 141 Karel Břinda
2014/11/13 Re: [Samtools-help] samtools mpileup -- error status 141 John Marshall
2014/11/13 [Samtools-help] samtools mpileup -- error status 141 Karel Břinda
2014/11/12 [Samtools-help] htsjdk error 阴长发
2014/11/10 [Samtools-help] IlluminaBasecallsToFastq on Nextseq run Langhorst, Brad
2014/11/10 Re: [Samtools-help] samtools sort Ann Mongan
2014/11/10 [Samtools-help] Samtools difference between -F 4 and -F 4 -q 1 Li, Xiu-Qing
2014/11/10 [Samtools-help] Homozygosity Arumilli, Meharji
2014/11/10 Re: [Samtools-help] Make error Devon Ryan
2014/11/10 Re: [Samtools-help] Make error Devon Ryan
2014/11/10 [Samtools-help] Make error Guillermo Parada
2014/11/10 Re: [Samtools-help] Strange INDELs Petr Danecek
2014/11/09 Re: [Samtools-help] merge bam files with identical @RG IDs Tommy Carstensen
2014/11/09 Re: [Samtools-help] merge bam files with identical @RG IDs Thomas W. Blackwell
2014/11/08 [Samtools-help] merge bam files with identical @RG IDs Tommy Carstensen
2014/11/07 Re: [Samtools-help] Using SAMTools with de novo assembled contigs Patricia Klein
2014/11/07 Re: [Samtools-help] Using SAMTools with de novo assembled contigs Joseph Fass
2014/11/07 [Samtools-help] Using SAMTools with de novo assembled contigs Trish Klein
2014/11/07 Re: [Samtools-help] Error Installing Samtools Shana Burrowes
2014/11/07 [Samtools-help] MergeBamAlignment issue w/ trailing /1? Ben Bimber
2014/11/07 Re: [Samtools-help] Error Installing Samtools John Marshall
2014/11/07 Re: [Samtools-help] Error Installing Samtools Devon Ryan
2014/11/07 [Samtools-help] Error Installing Samtools Shana Burrowes
2014/11/06 [Samtools-help] Minimal filter Holly Beale
2014/11/06 [Samtools-help] Out of memory behaviour when running samtools sort C.Y. Lim
2014/11/06 Re: [Samtools-help] Strange INDELs Rasmus Borup Hansen
2014/11/06 Re: [Samtools-help] Tag lost during samtools sort John Marshall
2014/11/06 Re: [Samtools-help] Strange INDELs Petr Danecek
2014/11/06 Re: [Samtools-help] Strange INDELs Rasmus Borup Hansen
2014/11/05 Re: [Samtools-help] Tag lost during samtools sort Mark Ravinet
2014/11/05 Re: [Samtools-help] Strange INDELs Petr Danecek
2014/11/05 Re: [Samtools-help] Tag lost during samtools sort Peter Cock
2014/11/05 Re: [Samtools-help] Tag lost during samtools sort Mark Ravinet
2014/11/05 Re: [Samtools-help] Tag lost during samtools sort Peter Cock
2014/11/04 [Samtools-help] Tag lost during samtools sort Mark Ravinet
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Colin Hercus
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Arumilli, Meharji
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Devon Ryan
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Arumilli, Meharji
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Thomas W. Blackwell
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Arumilli, Meharji
2014/11/04 Re: [Samtools-help] Indel with insertion of "N" Thomas W. Blackwell
2014/11/04 Re: [Samtools-help] Strange INDELs Rasmus Borup Hansen
2014/11/04 [Samtools-help] Indel with insertion of "N" Arumilli, Meharji
2014/11/04 Re: [Samtools-help] Strange INDELs Petr Danecek
2014/11/03 [Samtools-help] Picard Release 1.124 - NOTE - Change to CLP Invocation! George Grant
2014/11/03 Re: [Samtools-help] Testing for absence of tag from info field with bcftools Petr Danecek
2014/11/03 [Samtools-help] Testing for absence of tag from info field with bcftools Tim Hughes
2014/11/02 Re: [Samtools-help] samtools -s issues Dror Hibsh
2014/10/31 Re: [Samtools-help] Samtools segfault in skip_aux() - long CIGAR string? John Marshall
2014/10/31 [Samtools-help] Strange INDELs Rasmus Borup Hansen
2014/10/31 Re: [Samtools-help] Samtools segfault in skip_aux() - long CIGAR string? Nick Loman
2014/10/31 Re: [Samtools-help] Samtools segfault in skip_aux() - long CIGAR string? Peter Cock
2014/10/31 [Samtools-help] Samtools segfault in skip_aux() - long CIGAR string? Nick Loman
2014/10/30 Re: [Samtools-help] Positions missing in mpileup output Petr Danecek
2014/10/29 [Samtools-help] Positions missing in mpileup output jbr950
2014/10/29 Re: [Samtools-help] bcftools query missing a field jbr950
2014/10/29 Re: [Samtools-help] bcftools query missing a field jbr950
2014/10/29 Re: [Samtools-help] bcftools query missing a field Shane McCarthy
2014/10/29 Re: [Samtools-help] bcftools query missing a field Thomas W. Blackwell
2014/10/29 [Samtools-help] bcftools query missing a field jbr950
2014/10/29 [Samtools-help] Fwd: N in ALT column mehar
2014/10/29 Re: [Samtools-help] difference between bwa aln and mem Daofeng Li
2014/10/29 Re: [Samtools-help] difference between bwa aln and mem Peter Cock
2014/10/29 Re: [Samtools-help] difference between bwa aln and mem Daofeng Li
2014/10/29 Re: [Samtools-help] difference between bwa aln and mem Alec Wysoker
2014/10/29 [Samtools-help] difference between bwa aln and mem Daofeng Li
2014/10/29 Re: [Samtools-help] can mpileup still output MQ values into a VCF Petr Danecek
2014/10/29 [Samtools-help] can mpileup still output MQ values into a VCF the all-new magic tortoise z
2014/10/29 [Samtools-help] picard CollectRnaSeqMetrics error: java.lang.NullPointerException Tom Harrop
2014/10/29 Re: [Samtools-help] Combined insertion/deletion missed completely Petr Danecek
2014/10/28 [Samtools-help] N in ALT column mehar
2014/10/28 Re: [Samtools-help] samtools -s issues Devon Ryan
2014/10/28 [Samtools-help] samtools -s issues Dror Hibsh
2014/10/27 Re: [Samtools-help] Help Nils Homer
2014/10/27 [Samtools-help] Help 黄桦
2014/10/26 Re: [Samtools-help] bam file error Camille A. Daniels
2014/10/26 Re: [Samtools-help] bam file error Thomas W. Blackwell
2014/10/26 [Samtools-help] bam file error Camille A. Daniels
2014/10/24 [Samtools-help] samtools mpileup call snp ggu
2014/10/23 Re: [Samtools-help] error samtools view -h Heng Li
2014/10/23 [Samtools-help] error samtools view -h Alexis Bertrand
2014/10/22 Re: [Samtools-help] Meaning of BAQ 0 in given context Andreas Wilm
2014/10/22 Re: [Samtools-help] SamLocusIterator Nils Homer
2014/10/22 [Samtools-help] samtools index segfault Andrew Bjonnes
2014/10/22 Re: [Samtools-help] MD tag with gaps in reference? Devon Ryan
2014/10/22 Re: [Samtools-help] Issue with samtools sorting by name Devon Ryan
2014/10/22 [Samtools-help] SamLocusIterator Julian Hess
2014/10/22 Re: [Samtools-help] Issue with samtools sorting by name Colin Hercus
2014/10/22 [Samtools-help] Issue with samtools sorting by name Nenad Bartonicek
2014/10/22 [Samtools-help] MD tag with gaps in reference? Florian Aldehoff
2014/10/21 [Samtools-help] Combined insertion/deletion missed completely Marc Sturm
2014/10/20 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Nils Homer
2014/10/20 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Heng Li
2014/10/20 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Heng Li
2014/10/20 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Salzberg, Anna
2014/10/20 [Samtools-help] Picard Release 1.123 George Grant
2014/10/17 Re: [Samtools-help] quick question about read names in Picard MarkDuplicates Richard Corbett
2014/10/17 Re: [Samtools-help] quick question about read names in Picard MarkDuplicates Nils Homer
2014/10/17 Re: [Samtools-help] ExtractIlluminaBarcodes on old HiSeq runs Nils Homer
2014/10/17 [Samtools-help] quick question about read names in Picard MarkDuplicates Richard Corbett
2014/10/17 [Samtools-help] ExtractIlluminaBarcodes on old HiSeq runs Ducar, Matthew D.
2014/10/17 Re: [Samtools-help] Meaning of BAQ 0 in given context Petr Danecek
2014/10/17 Re: [Samtools-help] Meaning of BAQ 0 in given context Andreas Wilm
2014/10/16 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Nils Homer
2014/10/16 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Nils Homer
2014/10/16 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Salzberg, Anna
2014/10/16 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Nils Homer
2014/10/16 Re: [Samtools-help] Reporting Bug - Optical Duplicates of Picard MarkDuplicates Salzberg, Anna
2014/10/16 Re: [Samtools-help] Meaning of BAQ 0 in given context Petr Danecek
2014/10/16 Re: [Samtools-help] BCFtools caller - consensus vs multiallelic? Petr Danecek
2014/10/15 Re: [Samtools-help] samtools sort crashing, truncating outputs Colin Hercus
2014/10/15 [Samtools-help] samtools sort crashing, truncating outputs Amy Williams
2014/10/14 Re: [Samtools-help] samtools reheader causes terminal to flicker Joshua Theisen
2014/10/14 Re: [Samtools-help] samtools reheader causes terminal to flicker Joshua Theisen
2014/10/14 [Samtools-help] BCFtools caller - consensus vs multiallelic? Casper Shyr
2014/10/14 Re: [Samtools-help] samtools reheader causes terminal to flicker Peter Cock
2014/10/14 [Samtools-help] samtools reheader causes terminal to flicker Joshua Theisen