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Threads Tagged with samtools

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Threads Tagged with samtools
	Thread / Thread Starter	Last Post	Replies	Views	Forum
	samtools v1.7 flagstat tsv output formats akoontz11	01-20-2022 08:23 AM by akoontz11	1	933	Bioinformatics
	Uniquely mapped reads on Bowtie with colorspace RNA-seq isii	05-12-2021 06:51 PM by isii	0	1,832	Bioinformatics
	Lose of paired-end info after samtools markdup ishtiaqueh	04-20-2021 03:50 PM by ishtiaqueh	0	1,427	Bioinformatics
	Samtools Flagstat, what is "with itself and mate mapped" mean? kdb.chau	02-03-2021 05:37 AM by kdb.chau	0	1,613	Bioinformatics
	How to get the information of GT (genotype) field in vcf files JiaZhou0116	04-28-2020 01:46 AM by JiaZhou0116	0	11,871	Bioinformatics
	Subsample regions of too high coverage sbrohee	01-27-2020 02:13 AM by nazen	2	3,914	Bioinformatics
	Discrepancy between samtools IDXSTATS and depth ndovro	11-21-2019 07:09 PM by ndovro	0	1,769	Bioinformatics
	Couting number of similar reads in sam file and output in bed file bobbyle0210	11-08-2019 07:41 AM by GenoMax	1	2,113	Bioinformatics
	mapping on to custom reference sequence PratikC	02-06-2019 04:41 PM by greekkey	14	11,106	Bioinformatics
	SNP calling using samtools ankit4035	01-10-2019 07:07 PM by ankit4035	2	3,363	Bioinformatics
	BAM -> FASTQ why can I not produce the same result? Alex Lee	12-11-2018 09:39 AM by atpoint	1	2,997	Bioinformatics
	BAM to FASTQ picard or samtools anoopkmr	08-09-2018 01:18 PM by anoopkmr	0	2,854	Bioinformatics
	Fixing BAM file header. Getting "truncated file. Aborting" error dfermin315	06-01-2018 04:32 AM by dfermin315	2	4,917	Bioinformatics
	bcftools - retain low quality read position support? clintp	05-17-2018 03:42 PM by clintp	0	2,201	Bioinformatics
	Question about Samtools Mpileup -u option clintp	05-04-2018 02:15 PM by clintp	0	2,377	Bioinformatics
	samtools: BAQ differs between mpileup and calmd adeirossi	04-12-2018 02:57 PM by kjohnsen	1	5,356	Bioinformatics
	Bowtie2 exact match and same length Aquilifer	04-09-2018 04:42 AM by Aquilifer	0	3,071	Bioinformatics
	bedToBam gives empty output rivered	03-26-2018 11:09 AM by rivered	1	2,978	Bioinformatics
	Incosistent number of paired end reads (BAM file generated by STAR using RSEM) Dolev Rahat	02-19-2018 04:39 AM by Dolev Rahat	0	2,429	Bioinformatics
	removing chromosomes from a bam file. tirohia	09-27-2017 03:22 AM by GenoMax	1	6,081	Bioinformatics
	Samtools how many reads were mapped as a pair Fay.huo	09-14-2017 04:51 AM by Fay.huo	0	2,405	Bioinformatics
	Samtools mac install problems mevs	06-21-2017 08:22 AM by GenoMax	1	3,447	Bioinformatics
	BWA sam -> bam in pipeline Virome	05-17-2017 06:26 AM by GenoMax	5	9,532	Bioinformatics
	How to generate VCF from HISAT2 pre-built SNP index? jol.espinoz	04-30-2017 11:03 AM by jol.espinoz	0	9,765	Genomic Resequencing
	Fusion reads in BAM Anastaziel	04-04-2017 06:37 AM by Anastaziel	0	3,547	Bioinformatics
	How can I dissect .sam files in text editor?? JacquesT	03-23-2017 07:34 AM by mastal	5	3,761	Bioinformatics
	Tablet viewing issue JacquesT	03-21-2017 08:50 AM by JacquesT	0	3,109	Bioinformatics
	Issue with mpileup quantic	03-20-2017 07:57 AM by quantic	0	2,473	Bioinformatics
	A question on Illumina paired-end reads alignment. Merging from different samples linudz	02-27-2017 10:16 AM by Brian Bushnell	4	4,524	Bioinformatics
	Problem Converting BAM to SAM on to Amazon S3 Using Samtools foolishbrat	02-20-2017 05:11 PM by gringer	1	2,996	Bioinformatics

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