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<prev • 1,054 results • page 1 of 36 • next >
2
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287
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6 follow
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How to fix .bam file that was diagnosed as "MISSING_READ_GROUP" by Picard ValidateSamFile
pilon picard validatesamfile bam written 5 months ago by freddiejung • 20 • updated 1 day ago by oriolebaltimore • 60
2
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1
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1.6k
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1
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BLAST geneate Output SAM file , Missing aligned sequences.
blast bam sam output rna-seq written 2.6 years ago by clear.choi • 30 • updated 3 days ago by RamRS ♦ 17k
3
votes
1
answer
998
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1
answer
BAM files for RRBS data in ENCODE Project
encode alignment rrbs bam download written 2.6 years ago by Shicheng Guo • 6.5k • updated 3 days ago by RamRS ♦ 17k
4
votes
2
answers
88
views
2
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Count 0, 5, 20 covered sites in bam
wgs bam written 6 days ago by DVA • 480 • updated 6 days ago by Pierre Lindenbaum ♦ 112k
3
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2
answers
117
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6 follow
2
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discrepancy between reads
reads bam igv deletion written 9 days ago by n.mekkes • 0 • updated 7 days ago by swbarnes2 ♦ 4.0k
0
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0
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62
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Pangenome from bam files
sequence wgs pangenome bam written 7 days ago by ssj262 • 0
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2
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1.7k
views
2
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Problem iterating through BAM file using pysam
python sam bam forloop pysam written 2.6 years ago by c9r1y • 0 • updated 10 days ago by RamRS ♦ 17k
7
votes
1
answer
1.1k
views
1
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Is there an authoritative source for optional BAM tags?
duplicates picard markduplicates bam written 2.6 years ago by John ♦ 12k • updated 10 days ago by RamRS ♦ 17k
3
votes
1
answer
1.8k
views
1
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Extracting Reads by position
alignment sam bam written 2.6 years ago by michael.madans94 • 10 • updated 11 days ago by RamRS ♦ 17k
3
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1
answer
182
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1
answer
Adding optional tags to a BAM file
single-cell bam sam rna-seq awk written 16 days ago by sc243 • 0
3
votes
1
answer
158
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5 follow
1
answer
Extraction of partially mapped reads from BAM
partially mapped reads bam bwa written 22 days ago by nkausthu • 20 • updated 22 days ago by Pierre Lindenbaum ♦ 112k
15
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0
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5.6k
views
0
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Extract reads within given region, and their mates
bam samtools written 3.2 years ago by user230613 • 260 • updated 22 days ago by RamRS ♦ 17k
1
vote
1
answer
100
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1
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Using one bam file with huge coverage, How to generate several bam files with different coverage
filter snps caller bam written 22 days ago by tarek.mohamed • 180 • updated 22 days ago by WouterDeCoster ♦ 32k
4
votes
1
answer
221
views
1
answer
Conversion of sam to bam using samtools
ngs bam samtools sam rna-seq written 8 weeks ago by abhilashreddy495 • 0 • updated 23 days ago by Biostar ♦♦ 20
0
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0
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190
views
0
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Converting Bisulfite-seq BAM files to fastq
tcga methylation bisulfite-seq bam written 9 weeks ago by divyswar01 • 0 • updated 26 days ago by Biostar ♦♦ 20
0
votes
0
answers
113
views
0
answers
How to add sequence information to vcf from MPileup
vcf bam snp mpileup rna-seq written 4 weeks ago by helge.fluess • 0
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3
answers
2.0k
views
6 follow
3
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How To Compute The Number Of Reads In Bam That Overlap With A Region? The Overlap Must Be 100%.
reads overlap bam written 5.5 years ago by siyu • 120 • updated 4 weeks ago by Biostar ♦♦ 20
7
votes
1
answer
168
views
1
answer
Down sampling BAM files for CNV detection
ngs bam dowsampling cnv written 4 weeks ago by Nandini • 670 • updated 4 weeks ago by WouterDeCoster ♦ 32k
0
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0
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437
views
0
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Extract assembled transcripts from Cufflinks gtf without to use reference genome
gtf cufflinks bcftools rna-seq bam written 12 months ago by marija.durdevic • 0 • updated 4 weeks ago by Biostar ♦♦ 20
7
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3
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165
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3
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Normalising RNA-seq samples from bam files for UCSC Genome browser visualization
bam bigwig rna-seq ucsc written 5 weeks ago by m93 • 90 • updated 4 weeks ago by Ian ♦ 5.2k
4
votes
2
answers
161
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5 follow
2
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best way to visualize bam file
visualize bam rna-seq written 5 weeks ago by lkianmehr • 10 • updated 4 weeks ago by Devon Ryan ♦ 84k
13
votes
2
answers
181
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5 follow
2
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Comparing reads of multiple BAM files (using getopts for parsing)
bam samtools seqtl getopts written 5 weeks ago by m93 • 90 • updated 5 weeks ago by jrj.healey ♦ 6.8k
0
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0
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165
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0
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remove primer sequences from BAM file
bam primer written 5 weeks ago by J.F.Jiang • 710
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1
answer
1.6k
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1
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the number of reads that have mapped to the each gene
ribo-seq bam toptah2 rna-seq written 3.1 years ago by F • 3.1k • updated 5 weeks ago by Biostar ♦♦ 20
1
vote
1
answer
191
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1
answer
Extracting reads from Pacbio Sequel BAM by read name
sequel arrow pbalign pacbio bam written 6 weeks ago by roryC • 0
3
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2
answers
339
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6 follow
2
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Forum: is Amazon Web Services (AWS) useful?
forum bam rna-seq written 9 weeks ago by ahadli.farid • 20 • updated 6 weeks ago by Friederike • 2.1k
1
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1
answer
144
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1
answer
Efficient processing of a read and its mate from bam file
htsjdk java bam samtools sam written 6 weeks ago by mhasa006 • 30 • updated 6 weeks ago by finswimmer ♦ 5.5k
0
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1
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1.5k
views
1
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why i cant have sam, sorted bam or bed by tophat output?
tophat bam written 3.1 years ago by F • 3.1k • updated 6 weeks ago by WouterDeCoster ♦ 32k
3
votes
2
answers
520
views
2
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Iterating through paired-end reads in samtools / pysam
python bam sam written 6 months ago by olavur • 60 • updated 6 weeks ago by gizone1 • 10
223
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11
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125k
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108 follow
11
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Tools To Calculate Average Coverage For A Bam File?
bam coverage sequencing written 7.7 years ago by Biomed ♦ 4.4k • updated 6 weeks ago by WouterDeCoster ♦ 32k
<prev • 1,054 results • page 1 of 36 • next >
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