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<prev • 542 results • page 1 of 19 • next >
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Is there any way to avoid adding the PG tag while creating a SAM output from BWA ?
pg sam bwa written 5 days ago by lakhujanivijay ♦ 4.6k • updated 5 days ago by Devon Ryan ♦ 93k
3
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0
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95
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Working With Large *.Bam Files
software error bam sam written 9 days ago by cdc421 • 0 • updated 9 days ago by zx8754 ♦ 8.7k
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0
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50
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Alignment Score (AS) tag in minimap2
minimap2 alignment sam written 12 days ago by tim.booth • 20
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1
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406
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6 follow
1
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Pipe SamToFastq, BWA mem not working
gatk sam bwa pipe written 4 months ago by abbysue • 10 • updated 18 days ago by Marco Pessoa • 0
3
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2
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93
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2
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SAM flags needed for paired-end strand-specific differential expression
alignment samtools sam rna-seq written 22 days ago by Etstevens • 0 • updated 22 days ago by kristoffer.vittingseerup • 2.9k
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112
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Counting abundance of each gene in SAM/BAM file
gene bam samtools sam abundance written 29 days ago by Hansen_869 • 10
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2
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Identifying The Mismatched Bases And Their Locations On The Chromosome In .Sam File
sam written 6.6 years ago by soosus • 80 • updated 4 weeks ago by Biostar ♦♦ 20
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1
answer
107
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1
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exon-intron reads in neuron samples
alignment sam rna-seq bam written 5 weeks ago by rgescudero • 30 • updated 5 weeks ago by geek_y ♦ 10k
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1
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114
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1
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Reconstruct reference sequence from SAM file?
sam written 7 weeks ago by eholleman • 0 • updated 7 weeks ago by WouterDeCoster ♦ 42k
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1
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126
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1
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Counting starting and ending positions of reads in reference genome
bedtools ngs bam sam rna-seq written 8 weeks ago by bobbyle0210 • 10 • updated 8 weeks ago by Pierre Lindenbaum ♦ 124k
1
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1
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5 follow
1
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Pipe pysam.view() output to pysam.sort()
python sam alignment pysam sort written 8 weeks ago by Macspider • 3.0k • updated 8 weeks ago by gb • 1.2k
1
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1
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171
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1
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Plenty of gaps with my sam alignment file, why is that?
tablet alignment mapping bam sam written 10 weeks ago by daniel.castanedamogo • 0 • updated 10 weeks ago by WouterDeCoster ♦ 42k
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109
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How to filter both reads of paired end reads by AS when only 1 of the 2 reads has an AS below 50
paired-end alignment samtools sam sambamba written 11 weeks ago by jelle • 0
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1
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129
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1
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Positions of variant in certain depth
variant sam written 11 weeks ago by avichaireich • 0
0
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1
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632
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1
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Error of SAMSequenceDictionary
samtools sam igv written 19 months ago by niu.shengyong • 50 • updated 3 months ago by Biostar ♦♦ 20
4
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1
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140
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1
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What are "unused reference sequences" in a bam file?
sam file bam samtools sam bam file written 3 months ago by anniejeanforster • 0 • updated 3 months ago by ATpoint ♦ 26k
15
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1
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8 follow
1
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Deciphering Cigar
cigar next-gen samtools sam alignment written 7.4 years ago by Leszek ♦ 4.0k • updated 3 months ago by Biostar ♦♦ 20
0
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0
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137
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GATK RevertSamSpark No Max_Discard_Fraction option
gatk sam written 4 months ago by aalith • 10
2
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2
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212
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2
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Having trouble with samtools cat
bam samtools sam written 5 months ago by matthew.dambrosio.1 • 0 • updated 5 months ago by John Marshall ♦ 1.8k
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4
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9.9k
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13 follow
4
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How To Count The Reads Mapped To Exon And Exon-Exon Junctions?
reads gff exon sam bam written 6.5 years ago by lwc628 • 210 • updated 5 months ago by m13113153781 • 0
3
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1
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191
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1
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bwa job - error with file size
fastq alignment bwa rna-seq sam written 5 months ago by Laura SMC • 0
1
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1
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169
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1
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What are the best tools for analyzing and identifying somatic mutations?
vcf bam snp rna-seq sam written 5 months ago by gprashant17 • 60 • updated 5 months ago by ATpoint ♦ 26k
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253
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Help in interpreting result of magic-blast on nt database
nt alignment paired-reads sam magic-blast written 6 months ago by Fabio Marroni • 2.4k
5
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1
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268
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1
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What is the accurate order of preprocessing steps in DNA Microarray gene expression analysis?
preprocessing limma sam microarray written 6 months ago by J. Smith • 0 • updated 6 months ago by Santosh Anand ♦ 5.0k
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2
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1.4k
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5 follow
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Tool: elPrep 4.0.0, a high-performance drop-in replacement tool for GATK4/Picard/SAMtools for processing SAM/BAM files
bam sam sort markduplicates bqsr tool written 13 months ago by Charlotte.Herzeel • 140
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0
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276
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Best SAM flags to evaluate host contamination
ngs sam written 6 months ago by ctseto • 250 • updated 6 months ago by finswimmer ♦ 13k
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147
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0
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How can bam file only retain potential variants?
samtools sam bwa written 6 months ago by gerrybio2010 • 0
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2
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1.0k
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2
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CIGAR operations performed according to strand or to read?
sequencing read format sam cigar written 24 months ago by Macspider • 3.0k • updated 7 months ago by shouldsee.gem • 0
0
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0
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231
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View MAF file and the reference sequence in a genome viewer/annotator along with SAM/BAM?
maf viewer bam sam written 7 months ago by DanielC • 100
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249
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0
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How to split both bam files and annotation files as per chromosome number?
annotation bam sam chr split written 7 months ago by Glory Basumata • 140
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