samtools-help

Messages by Date

2017/02/22 [Samtools-help] Problem Converting BAM to SAM on to Amazon-S3 Using Samtools Gundala Viswanath
2017/02/21 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Petr Danecek
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Jiri Nehyba
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Colin Hercus
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Jiri Nehyba
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Colin Hercus
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Jiri Nehyba
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Petr Danecek
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Jiri Nehyba
2017/02/20 Re: [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Thomas W. Blackwell
2017/02/19 [Samtools-help] "Strand bias" in mutation calling with samtools-bcftools Jiri Nehyba
2017/02/13 Re: [Samtools-help] samtools fastq - is it broken? Keiran Raine
2017/02/13 [Samtools-help] help for " samtools tview -d" 王灿
2017/02/08 [Samtools-help] samtools fastq - is it broken? Keiran Raine
2017/02/07 Re: [Samtools-help] samtools rmdup help Qian Li
2017/02/07 [Samtools-help] Getting nucleotide information from mpileup output Özcan Esen
2017/02/07 Re: [Samtools-help] samtools rmdup help James Bonfield
2017/02/07 [Samtools-help] samtools rmdup help Qian Li
2017/01/17 [Samtools-help] samtools mpileup help Pramod b.m
2017/01/17 [Samtools-help] rmdup options Elle
2017/01/16 Re: [Samtools-help] Zero Length Reads in SAM Colin Hercus
2017/01/16 Re: [Samtools-help] Zero Length Reads in SAM James Bonfield
2017/01/16 Re: [Samtools-help] Zero Length Reads in SAM Colin Hercus
2017/01/16 Re: [Samtools-help] indexing huge BAM file James Bonfield
2017/01/16 Re: [Samtools-help] Zero Length Reads in SAM Robert Davies
2017/01/15 [Samtools-help] Zero Length Reads in SAM Colin Hercus
2017/01/14 Re: [Samtools-help] indexing huge BAM file Irena Fischer-Hwang
2017/01/14 Re: [Samtools-help] indexing huge BAM file Peter Cock
2017/01/14 Re: [Samtools-help] indexing huge BAM file Thomas W. Blackwell
2017/01/14 Re: [Samtools-help] indexing huge BAM file Tommy Carstensen
2017/01/13 [Samtools-help] indexing huge BAM file Irena Fischer-Hwang
2017/01/12 Re: [Samtools-help] samtools stats error Madolyn Macdonald
2017/01/12 Re: [Samtools-help] samtools stats error John Marshall
2017/01/11 [Samtools-help] help neelakandan rakesh
2017/01/10 Re: [Samtools-help] [Samtools-devel] Samtools view -m Devon Ryan
2017/01/10 [Samtools-help] Samtools view -m James Bonfield
2017/01/09 Re: [Samtools-help] samtools stats error Sam Nicholls
2017/01/09 [Samtools-help] samtools stats error Madolyn Macdonald
2017/01/09 Re: [Samtools-help] Question regarding bam compression after sorting James Bonfield
2017/01/08 [Samtools-help] Question regarding bam compression after sorting Angela Zou
2017/01/05 Re: [Samtools-help] please remove my email from the list John Marshall
2017/01/04 [Samtools-help] please remove my email from the list Hadas Ner Gaon
2017/01/04 Re: [Samtools-help] samtools sort for paired-end .bam cannot find chromosome name in text header Holbrook J .
2017/01/04 Re: [Samtools-help] samtools sort for paired-end .bam cannot find chromosome name in text header Holbrook J .
2017/01/04 Re: [Samtools-help] samtools sort for paired-end .bam cannot find chromosome name in text header Robert Davies
2017/01/04 Re: [Samtools-help] samtools sort for paired-end .bam cannot find chromosome name in text header John Marshall
2017/01/04 Re: [Samtools-help] samtools sort for paired-end .bam cannot find chromosome name in text header Robert Davies
2017/01/03 [Samtools-help] samtools sort for paired-end .bam cannot find chromosome name in text header Holbrook J .
2017/01/03 [Samtools-help] FW: samtools sort for paired-end .bam cannot find chromosome name in text header Holbrook J .
2016/12/21 [Samtools-help] Samtools depth question Fauni, Harper (NIH/NHGRI) [F]
2016/12/21 Re: [Samtools-help] Samtools depth question Fauni, Harper (NIH/NHGRI) [F]
2016/12/15 Re: [Samtools-help] why "samtools view" change the bam file Michael Peng
2016/12/15 Re: [Samtools-help] why "samtools view" change the bam file Thomas W. Blackwell
2016/12/14 [Samtools-help] why "samtools view" change the bam file Michael Peng
2016/12/14 Re: [Samtools-help] Samtools mpileup reference is different from input reference fasta Jacob Ulirsch
2016/12/14 Re: [Samtools-help] Samtools mpileup reference is different from input reference fasta John Marshall
2016/12/14 Re: [Samtools-help] Samtools mpileup reference is different from input reference fasta John Marshall
2016/12/14 [Samtools-help] Samtools mpileup reference is different from input reference fasta Jacob Ulirsch
2016/12/02 Re: [Samtools-help] Information about the algorithm John Marshall
2016/12/02 Re: [Samtools-help] Information about the algorithm Peter Cock
2016/12/02 [Samtools-help] Information about the algorithm Sebastian Gregoricchio
2016/11/30 [Samtools-help] bcftools merge automatically Left-align? 3110101054
2016/11/30 Re: [Samtools-help] Limit number of bam files Samtools1.3 hans . daetwyler
2016/11/30 Re: [Samtools-help] Limit number of bam files Samtools1.3 Martin MOKREJŠ
2016/11/30 Re: [Samtools-help] Limit number of bam files Samtools1.3 James Bonfield
2016/11/28 Re: [Samtools-help] samtools-1.2 install problem John Marshall
2016/11/27 [Samtools-help] Limit number of bam files Samtools1.3 hans . daetwyler
2016/11/26 [Samtools-help] Depth 0 though the region is covered! Qiongxian Lu
2016/11/26 [Samtools-help] samtools-1.2 install problem yincl2013
2016/11/25 [Samtools-help] Error when using tview Shannon Joslin
2016/11/23 Re: [Samtools-help] bcftools merge : multiple rows per position Davis, Steven
2016/11/21 Re: [Samtools-help] bcftools merge : multiple rows per position Thomas W. Blackwell
2016/11/21 Re: [Samtools-help] bcftools merge : multiple rows per position Davis, Steven
2016/11/21 [Samtools-help] bcftools Error Kousik Kundu
2016/11/21 Re: [Samtools-help] faidx error_could not build fai index John Marshall
2016/11/18 Re: [Samtools-help] faidx error_could not build fai index John Marshall
2016/11/18 [Samtools-help] faidx error_could not build fai index 陈然
2016/11/17 [Samtools-help] bcftools merge multiple rows per position Davis, Steven
2016/11/09 [Samtools-help] Indels, DP and DP4 Florian Battke
2016/11/07 Re: [Samtools-help] HELP - converting var.flt.vcf files James Robinson
2016/11/07 Re: [Samtools-help] HELP - converting var.flt.vcf files James Robinson
2016/11/07 Re: [Samtools-help] HELP - converting var.flt.vcf files Thomas W. Blackwell
2016/11/07 [Samtools-help] HELP - converting var.flt.vcf files Rumpf, Wolfgang
2016/10/28 Re: [Samtools-help] Cram conversion error: [main_samview] failed to write the SAM header Veronica Suaste Morales
2016/10/26 Re: [Samtools-help] Cram conversion error: [main_samview] failed to write the SAM header Shane McCarthy
2016/10/26 [Samtools-help] Cram conversion error: [main_samview] failed to write the SAM header Veronica Suaste Morales
2016/10/14 [Samtools-help] Extended BAQ Federico Abascal
2016/10/13 Re: [Samtools-help] SAMTOOLS OPEN SOURCE? Peter Cock
2016/10/13 Re: [Samtools-help] SAMTOOLS OPEN SOURCE? James Lick
2016/10/13 [Samtools-help] SAMTOOLS OPEN SOURCE? Apoorva Kulkarni
2016/10/10 Re: [Samtools-help] samtools sort -n Colin Hercus
2016/10/10 Re: [Samtools-help] samtools sort -n Andrew Bjonnes
2016/10/10 Re: [Samtools-help] samtools sort -n Juan Daniel Montenegro Cabrera
2016/10/10 [Samtools-help] samtools sort -n Rebecca Harris
2016/10/10 Re: [Samtools-help] samtools sort problem Juan Daniel Montenegro Cabrera
2016/10/10 Re: [Samtools-help] samtools sort problem Peter Cock
2016/10/10 Re: [Samtools-help] samtools sort problem John Marshall
2016/10/09 Re: [Samtools-help] samtools sort problem Juan Daniel Montenegro Cabrera
2016/10/09 Re: [Samtools-help] samtools sort problem Juan Daniel Montenegro Cabrera
2016/10/07 Re: [Samtools-help] samtools sort problem John Marshall
2016/10/07 Re: [Samtools-help] samtools sort problem Juan Daniel Montenegro Cabrera
2016/10/07 [Samtools-help] samtools sort problem Juan Daniel Montenegro Cabrera
2016/10/06 [Samtools-help] truncated file after reheader Seb
2016/10/04 Re: [Samtools-help] bcftools view, filter on AF Tommy Carstensen
2016/10/04 Re: [Samtools-help] bcftools view, filter on AF Petr Danecek
2016/10/04 Re: [Samtools-help] bcftools view, filter on AF Petr Danecek
2016/10/04 [Samtools-help] bcftools view, filter on AF Tommy Carstensen
2016/10/04 [Samtools-help] Samtools data source questions Jiaming Liu
2016/10/03 [Samtools-help] picard-2.6.0 peijia
2016/09/27 Re: [Samtools-help] Instruction to access bam files on aws s3 storage John Marshall
2016/09/27 [Samtools-help] Instruction to access bam files on aws s3 storage Xing Xu
2016/09/19 [Samtools-help] small contigs connected to be superreference 郭梁
2016/09/19 Re: [Samtools-help] samtools mpileup James Bonfield
2016/09/19 [Samtools-help] samtools mpileup peijia
2016/09/14 Re: [Samtools-help] mpileup result in indel containing SNP Colin Hercus
2016/09/14 [Samtools-help] mpileup result in indel containing SNP Hung Chih-Ming
2016/09/14 [Samtools-help] Calling SNPs with SAMtools and BCFtools peijia
2016/09/13 [Samtools-help] HTSlib 1.3.2 released John Marshall
2016/09/01 Re: [Samtools-help] FollowUp - Running samtools mpileup on BAM that contains colorspace Colin Davenport
2016/08/23 Re: [Samtools-help] bcftools index Segmentation fault Yuelin Zhu
2016/08/23 Re: [Samtools-help] bcftools index Segmentation fault John Marshall
2016/08/23 Re: [Samtools-help] bcftools index Segmentation fault John Marshall
2016/08/22 Re: [Samtools-help] bcftools index Segmentation fault Yuelin Zhu
2016/08/22 Re: [Samtools-help] bcftools index Segmentation fault Thomas W. Blackwell
2016/08/22 [Samtools-help] bcftools index Segmentation fault Yuelin Zhu
2016/08/22 [Samtools-help] FollowUp - Running samtools mpileup on BAM that contains colorspace Michael Gruenstaeudl
2016/08/21 [Samtools-help] Running samtools mpileup on BAM that contains colorspace Michael Gruenstaeudl
2016/08/19 Re: [Samtools-help] Open file .tbi Devon Ryan
2016/08/19 Re: [Samtools-help] Open file .tbi Thomas W. Blackwell
2016/08/19 [Samtools-help] Open file .tbi Gui GuiGui
2016/08/15 Re: [Samtools-help] Installation problem for a new user David Siegel
2016/08/15 Re: [Samtools-help] Installation problem for a new user Thomas W. Blackwell
2016/08/15 Re: [Samtools-help] Installation problem for a new user Devon Ryan
2016/08/15 [Samtools-help] Installation problem for a new user David Siegel
2016/08/13 [Samtools-help] MATE_NOT_FOUND after library filtering Hannes Svardal
2016/08/04 Re: [Samtools-help] unsubscribe John Marshall
2016/08/04 [Samtools-help] unsubscribe Þórður Kristjánsson
2016/08/03 [Samtools-help] samtools phase -A option not working? Kathleen Keough
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Keiran Raine
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag James Bonfield
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Keiran Raine
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Heng Li
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Keiran Raine
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Keiran Raine
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag James Bonfield
2016/08/02 Re: [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/08/01 Re: [Samtools-help] samtools calmd behavior and MD tag James Bonfield
2016/07/28 Re: [Samtools-help] different output when upgrading samtools from 0.1.19 to 1.3.1 Adam Witney
2016/07/28 Re: [Samtools-help] different output when upgrading samtools from 0.1.19 to 1.3.1 John Marshall
2016/07/28 [Samtools-help] samtools calmd behavior and MD tag Martin MOKREJŠ
2016/07/27 [Samtools-help] documentation regarding samtools phase Kathleen Keough
2016/07/27 [Samtools-help] different output when upgrading samtools from 0.1.19 to 1.3.1 Adam Witney
2016/07/27 [Samtools-help] bcftools merge King Wai Lau
2016/07/27 [Samtools-help] mpileup on a few SNPs? Tommy Carstensen
2016/07/26 Re: [Samtools-help] incorrect reference bases Colin Hercus
2016/07/26 Re: [Samtools-help] incorrect reference bases John Marshall
2016/07/22 Re: [Samtools-help] incorrect reference bases Thomas W. Blackwell
2016/07/22 [Samtools-help] incorrect reference bases Annie Cowell
2016/07/19 [Samtools-help] Speed up VCF query by partial tbi loading CHEN Yi-Shiou
2016/07/18 [Samtools-help] are pair-end reads considered as orphan reads by samtools tview? 杨俊辉
2016/07/15 [Samtools-help] samtools confused genotype 郑竹清
2016/07/15 [Samtools-help] samtools with -L option hangs forever Wang, Shuoguo
2016/07/15 [Samtools-help] mpileup Error Julia Reisler
2016/07/14 [Samtools-help] bcftools annotate segfaults with tab-delimited file Roderick Yao
2016/07/11 [Samtools-help] pileup -vcf insertion/deletion columns Somya Khare
2016/07/07 [Samtools-help] Discrepancies in reported pileup read segments Lars Barquist
2016/07/04 [Samtools-help] I have a problem Elsayed
2016/07/01 Re: [Samtools-help] BC tag question Yossi Farjoun
2016/06/29 Re: [Samtools-help] BC tag question Nils Homer
2016/06/28 [Samtools-help] BC tag question Richard Corbett
2016/06/24 [Samtools-help] samtools faidx and tabix options for the regions Yongchao Ge
2016/06/22 Re: [Samtools-help] samtools view -F/-f multiple times Dario Beraldi
2016/06/22 Re: [Samtools-help] Error when converting cram to bam James Bonfield
2016/06/22 [Samtools-help] Error when converting cram to bam Yvonne Teng
2016/06/22 Re: [Samtools-help] samtools view -F/-f multiple times James Bonfield
2016/06/22 Re: [Samtools-help] samtools view -F/-f multiple times James Bonfield
2016/06/22 [Samtools-help] samtools view -F/-f multiple times Dario Beraldi
2016/06/17 Re: [Samtools-help] bug in samtools mpileup? Colin Hercus
2016/06/17 Re: [Samtools-help] bug in samtools mpileup? Federico Abascal
2016/06/16 Re: [Samtools-help] bug in samtools mpileup? Colin Hercus
2016/06/16 [Samtools-help] bug in samtools mpileup? Federico Abascal
2016/06/14 Re: [Samtools-help] EOF marker is absent Peter Cock
2016/06/14 [Samtools-help] EOF marker is absent Jens Christian Froslev Nielsen
2016/06/13 [Samtools-help] SNP calling in different version cause different results Sung-Huan Yu
2016/06/13 Re: [Samtools-help] error building samtools-1.3.1 on mac OS X VIE
2016/06/13 Re: [Samtools-help] error building samtools-1.3.1 on mac OS X VIE
2016/06/13 Re: [Samtools-help] error building samtools-1.3.1 on mac OS X John Marshall
2016/06/13 Re: [Samtools-help] error building samtools-1.3.1 on mac OS X James Bonfield
2016/06/10 [Samtools-help] error building samtools-1.3.1 on mac OS X VIE
2016/06/09 [Samtools-help] BGZF/Gzip variants James Bonfield
2016/06/09 Re: [Samtools-help] faidx index caching David K Jackson
2016/06/07 [Samtools-help] faidx index caching Robert Davies
2016/06/02 [Samtools-help] samtools 1.3.1 max depth Lilit Nersisyan