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<prev • 1,026 results • page 1 of 35 • next >
2
votes
1
answer
19
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5 follow
1
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Job: Merge .bam files by groups of lanes
bam samtools job rna-seq written 36 minutes ago by elb • 100
2
votes
1
answer
80
views
1
answer
Extract the SAM File header section
htsjdk java bam samtools sam written 20 hours ago by mhasa006 • 30 • updated 8 hours ago by Pierre Lindenbaum ♦ 110k
0
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0
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41
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0
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samtools mpileup `error uninitialized value $l in numeric lt` during BAM to FASTA conversion
fasta samtolls mpileup bam written 1 day ago by marongiu.luigi • 210
5
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0
answers
1.2k
views
0
answers
Aligned Pacbio 54X Human Genome?
bam written 4.4 years ago by 14134125465346445 • 3.4k • updated 4 days ago by Biostar ♦♦ 20
67
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6
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35k
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42 follow
6
answers
How to plot coverage and depth statistics of a bam file
sequencing next-gen coverage bam depth written 4.1 years ago by krithika.gu • 200 • updated 4 days ago by Fred0730 • 0
5
votes
1
answer
153
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6 follow
1
answer
bam to vcf to .bed
vcf bed bam written 5 days ago by genomics Newbie • 10 • updated 4 days ago by finswimmer ♦ 3.6k
2
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3
answers
3.8k
views
5 follow
3
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Does Bam File Include Unmapped Reads As Well?
read bam mapping written 5.4 years ago by Jordan • 1.0k • updated 6 days ago by ammar.husami • 0
0
votes
0
answers
123
views
0
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Difference in BAM coverage between bedtools output and IGV coverage track
bedtools iontorrent bam written 7 days ago by myology • 0
2
votes
1
answer
92
views
1
answer
Why do I have more reads in my .bam file than in my .fastq input file?
fastq alignment bam written 6 days ago by francois • 10 • updated 6 days ago by Pierre Lindenbaum ♦ 110k
4
votes
2
answers
81
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2
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Size different between two uBam file which generate from the same Fastq.
gatk bam samtools written 8 days ago by weichi • 10 • updated 8 days ago by h.mon ♦ 16k
0
votes
1
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130
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1
answer
csaw - Htslib import errors and missing reads/chromosomes
csaw bam chip-seq atac-seq library written 18 days ago by reskejak • 0
30
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4
answers
21k
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16 follow
4
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Converting Bam To Bedgraph For Viewing On Ucsc?
bedtools bed bam genome-browser ucsc written 5.4 years ago by user • 770 • updated 8 days ago by ATpoint • 5.5k
2
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0
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160
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0
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error with picard AddOrReplaceReadgroup
picard bam written 9 days ago by elhlalisoufiane • 0
0
votes
1
answer
139
views
1
answer
How to efficiently remove a list of reads according to their ID and mapped position from BAM file?
alignment samtools rna-seq bam written 14 days ago by MarVi • 0 • updated 10 days ago by Pierre Lindenbaum ♦ 110k
1
vote
1
answer
66
views
1
answer
Show RNASeq coverage distribution over transcript length
bam rna-seq transcriptomics sequencing written 11 days ago by Federico Giorgi • 410 • updated 11 days ago by Carlo Yague • 4.0k
3
votes
1
answer
112
views
1
answer
bam file merge
merge bam written 14 days ago by genomics Newbie • 10 • updated 14 days ago by h.mon ♦ 16k
2
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0
answers
107
views
0
answers
problem with genome viewer IGV
bam mapping igv written 19 days ago by StudentBio • 0 • updated 19 days ago by genomax ♦ 51k
12
votes
1
answer
237
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8 follow
1
answer
Extract PE Reads (with their mates) supporting variants in vcf file
vcf sequence bam written 22 days ago by pitithat • 10 • updated 20 days ago by Venkatesh Chellappa • 10
5
votes
2
answers
129
views
5 follow
2
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Filter sam/bam files
filter bam samtools sam gbs written 22 days ago by ramesh.8v • 200 • updated 21 days ago by swbarnes2 ♦ 3.8k
0
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0
answers
92
views
0
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Twist Bioscience BAM example
data twist bam capture written 25 days ago by sacha • 1.3k
1
vote
1
answer
237
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1
answer
Iterating through paired-end reads in samtools / pysam
python bam sam written 3 months ago by olavur • 60 • updated 26 days ago by Michi • 930
7
votes
2
answers
241
views
6 follow
2
answers
Estimating cross contamination in a set of BAMS
bam contamination written 28 days ago by Pierre Lindenbaum ♦ 110k • updated 28 days ago by igor ♦ 6.3k
19
votes
3
answers
5.9k
views
3
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Check if BAM is derived from pair-end or single-end reads?
bam pair-end single-end written 2.4 years ago by medranom38 • 30 • updated 28 days ago by Hakubi • 0
6
votes
2
answers
183
views
2
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"Invalid BAM file header: missing sequence name in file" when trying to visualise .bam file in IGV
alignment bam igv written 4 weeks ago by francois • 10 • updated 4 weeks ago by WouterDeCoster ♦ 30k
2
votes
2
answers
109
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2
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How many reads cover the exon per gene from a BAM? The gene (or exon) is totally covered by BAM file?
gene bam coverage written 4 weeks ago by Andrea Spinelli • 10 • updated 4 weeks ago by Devon Ryan ♦ 81k
8
votes
3
answers
122
views
6 follow
3
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BWA (mem, sampe, or aln) used in bam file
bam bwa sequencing written 4 weeks ago by rborges • 50
2
votes
0
answers
294
views
0
answers
Downsample a Bam file (Picard DownsampleSam)
picard downsample rna-seq bam written 5 weeks ago by ra • 0
1
vote
1
answer
137
views
1
answer
Download example data of cancer gene-panel
fastq gene-panel bam written 5 weeks ago by hshah • 20 • updated 5 weeks ago by genomax ♦ 51k
0
votes
1
answer
126
views
1
answer
extract one-side unmapped reads from sam
tophat bam samtools sam written 5 weeks ago by liorglic • 40 • updated 5 weeks ago by Carlo Yague • 4.0k
10
votes
3
answers
242
views
6 follow
3
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Sampling with replacement from a bam file
bam sample with replacement written 5 weeks ago by harleen.sn • 10 • updated 5 weeks ago by Alex Reynolds ♦ 24k
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