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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 Flagstat, what is "with itself and mate mapped" mean? kdb.chau	02-03-2021 06:37 AM by kdb.chau	0	286	Bioinformatics
	How to get the information of GT (genotype) field in vcf files JiaZhou0116	04-28-2020 05:31 AM by Sadi47	1	4,295	Bioinformatics
	Subsample regions of too high coverage sbrohee	01-27-2020 03:13 AM by nazen	2	2,708	Bioinformatics
	Discrepancy between samtools IDXSTATS and depth ndovro	11-21-2019 08:09 PM by ndovro	0	990	Bioinformatics
	Couting number of similar reads in sam file and output in bed file bobbyle0210	11-08-2019 08:41 AM by GenoMax	1	1,223	Bioinformatics
	mapping on to custom reference sequence PratikC	02-06-2019 05:41 PM by greekkey	14	9,076	Bioinformatics
	SNP calling using samtools ankit4035	01-10-2019 08:07 PM by ankit4035	2	2,271	Bioinformatics
	BAM -> FASTQ why can I not produce the same result? Alex Lee	12-11-2018 10:39 AM by atpoint	1	2,007	Bioinformatics
	BAM to FASTQ picard or samtools anoopkmr	08-09-2018 02:18 PM by anoopkmr	0	2,057	Bioinformatics
	Fixing BAM file header. Getting "truncated file. Aborting" error dfermin315	06-01-2018 05:32 AM by dfermin315	2	3,184	Bioinformatics
	bcftools - retain low quality read position support? clintp	05-17-2018 04:42 PM by clintp	0	1,512	Bioinformatics
	Question about Samtools Mpileup -u option clintp	05-04-2018 03:15 PM by clintp	0	1,595	Bioinformatics
	samtools: BAQ differs between mpileup and calmd adeirossi	04-12-2018 03:57 PM by kjohnsen	1	4,408	Bioinformatics
	Bowtie2 exact match and same length Aquilifer	04-09-2018 05:42 AM by Aquilifer	0	2,078	Bioinformatics
	bedToBam gives empty output rivered	03-26-2018 12:09 PM by rivered	1	2,093	Bioinformatics
	Incosistent number of paired end reads (BAM file generated by STAR using RSEM) Dolev Rahat	02-19-2018 05:39 AM by Dolev Rahat	0	1,599	Bioinformatics
	removing chromosomes from a bam file. tirohia	09-27-2017 04:22 AM by GenoMax	1	4,478	Bioinformatics
	Samtools how many reads were mapped as a pair Fay.huo	09-14-2017 05:51 AM by Fay.huo	0	1,732	Bioinformatics
	Samtools mac install problems mevs	06-21-2017 09:22 AM by GenoMax	1	2,552	Bioinformatics
	BWA sam -> bam in pipeline Virome	05-17-2017 07:26 AM by GenoMax	5	7,767	Bioinformatics
	How to generate VCF from HISAT2 pre-built SNP index? jol.espinoz	04-30-2017 12:03 PM by jol.espinoz	0	6,644	Genomic Resequencing
	Fusion reads in BAM Anastaziel	04-04-2017 07:37 AM by Anastaziel	0	2,691	Bioinformatics
	How can I dissect .sam files in text editor?? JacquesT	03-23-2017 08:34 AM by mastal	5	2,873	Bioinformatics
	Tablet viewing issue JacquesT	03-21-2017 09:50 AM by JacquesT	0	2,300	Bioinformatics
	Issue with mpileup quantic	03-20-2017 08:57 AM by quantic	0	1,840	Bioinformatics
	A question on Illumina paired-end reads alignment. Merging from different samples linudz	02-27-2017 11:16 AM by Brian Bushnell	4	3,356	Bioinformatics
	Problem Converting BAM to SAM on to Amazon S3 Using Samtools foolishbrat	02-20-2017 06:11 PM by gringer	1	2,192	Bioinformatics
	Samtools version 1.3.1 merge function, merging two bam, doesnt contain all the info. bioinfotechs	02-01-2017 07:13 AM by bioinfotechs	0	2,341	Bioinformatics
	Question: bcftools: Wrong number of PL fields? nals=4 npl=6 schumric	01-09-2017 11:37 AM by schumric	3	3,683	Illumina/Solexa
	HTSeq-count: Warning: x reads with missing mate encountered. ronaldrcutler	12-24-2016 08:00 AM by ronaldrcutler	0	4,245	Bioinformatics

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