Showing: samreset
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7
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1
answer
208
views
1
answer
8
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3
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176
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7 follow
3
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Find bams with identical names and merge them
shell picard samtools sam bam written 18 days ago by brendes20 • updated 17 days ago by cpad011210k
7
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1
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118
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1
answer
5
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1
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191
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1
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Number of unmapped reads after filtering issue
samtools sam sequencing written 25 days ago by max_1910 • updated 24 days ago by finswimmer9.0k
2
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1
answer
105
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1
answer
Ignore SAM header section using awk
bam sam sequencing written 25 days ago by max_1910 • updated 25 days ago by RamRS20k
9
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3
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1.0k
views
5 follow
3
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Faster way to get coverage per base
alignment sam written 22 months ago by finswimmer9.0k
6
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3
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2.3k
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8 follow
3
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Mismatch and Indel statistics from BAM/SAM file
indel bam sam written 20 months ago by sbdk8240 • updated 5 weeks ago by FatihSarigol110
19
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1
answer
757
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1
answer
4
votes
1
answer
171
views
1
answer
Contig name in SAM file
contig contigs sam contig name written 6 weeks ago by maryam.9510 • updated 6 weeks ago by WouterDeCoster36k
5
votes
1
answer
1.3k
views
1
answer
Extracting tlen From BAM File Using htsjdk
htsjdk bam samtools sam tlen written 2.3 years ago by Hakan.Erol.HE10 • updated 7 weeks ago by Biostar ♦♦ 20
2
votes
2
answers
179
views
2
answers
Making BAM or SAM files equivalent
alignment popoolation2 sam popoolation bam written 7 weeks ago by keturner1230 • updated 7 weeks ago by finswimmer9.0k
2
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1
answer
131
views
1
answer
Filtering noise out of SAM file using CIGAR
cigar sam written 8 weeks ago by blur90 • updated 8 weeks ago by Carambakaracho670
0
votes
1
answer
143
views
1
answer
Errors with samtools depth on merged bam file
bam samtools sam written 9 weeks ago by rbronste230 • updated 9 weeks ago by Vijay Lakhujani3.5k
0
votes
0
answers
132
views
0
answers
Filtering SAM file based on column numbers
filter alignment sam written 11 weeks ago by elena.syp0 • updated 11 weeks ago by Pierre Lindenbaum116k
2
votes
1
answer
271
views
1
answer
sam file not showing multi mapped reads
bowtie2 sam written 4 months ago by mossigstamboulian30 • updated 11 weeks ago by Biostar ♦♦ 20
1
vote
1
answer
192
views
1
answer
Get genes and coverage/depth per gene from sam/bam
ngs bam sam coverage per gene depth per gene written 11 weeks ago by prishly0 • updated 11 weeks ago by Charles Warden5.9k
1
vote
1
answer
203
views
1
answer
0
votes
0
answers
180
views
0
answers
How to ignore truncation error with PySam?
python sam alignment mapping pysam written 3 months ago by O.rka70 • updated 3 months ago by Biostar ♦♦ 20
5
votes
1
answer
236
views
1
answer
A constant problem with SAM file header
software error bowtie2 sam written 3 months ago by popescuiofelia0 • updated 3 months ago by h.mon22k
3
votes
1
answer
150
views
1
answer
Finding the number of aligned nucleotides per read in a sam file
cigar stings sam written 3 months ago by ioannis30 • updated 3 months ago by Pierre Lindenbaum116k
0
votes
1
answer
510
views
1
answer
How to extract sequence message from SAM?
bed sam sequencing written 20 months ago by Jeason Rad30 • updated 3 months ago by Biostar ♦♦ 20
3
votes
1
answer
269
views
8 follow
1
answer
Merge multiple Sam files to one big Sam file. How?
overlapzscore samtools sam heatmap written 3 months ago by jaqx00840 • updated 3 months ago by gocougs0
4
votes
1
answer
197
views
1
answer
1
vote
1
answer
1.7k
views
1
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I can't convert the sam file to fastq file.
fastq sam written 2.9 years ago by porori30000 • updated 4 months ago by RamRS20k
2
votes
1
answer
1.7k
views
1
answer
BLAST geneate Output SAM file , Missing aligned sequences.
blast bam sam output rna-seq written 2.9 years ago by clear.choi30 • updated 4 months ago by RamRS20k
3
votes
0
answers
778
views
0
answers
softclip vs mismatch at either end
alignment sam written 2.4 years ago by -_-730 • updated 4 months ago by Biostar ♦♦ 20
2
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2
answers
1.9k
views
2
answers
Problem iterating through BAM file using pysam
python sam bam forloop pysam written 2.9 years ago by c9r1y0 • updated 4 months ago by RamRS20k
3
votes
1
answer
2.0k
views
1
answer
Extracting Reads by position
alignment sam bam written 2.9 years ago by michael.madans9410 • updated 4 months ago by RamRS20k
3
votes
1
answer
321
views
1
answer
0
votes
0
answers
207
views
0
answers
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