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<prev • 58 results • page 1 of 2 • next >
3
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2
answers
190
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2
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samtools mpileup keeps making an empty file
samtools pileup written 5 weeks ago by James Reeve • 40 • updated 5 weeks ago by gab • 20
5
votes
1
answer
6.6k
views
5 follow
1
answer
Pileup To Vcf Format
vcf pileup written 7.9 years ago by Pri • 20 • updated 3 months ago by Mbillah • 110
2
votes
4
answers
832
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5 follow
4
answers
Popoolation variance-sliding.pl output shows only zero value
popoolation tajima's pi samtools pileup tajima's d written 19 months ago by bruseq • 20 • updated 3 months ago by alex.zaccaron • 0
1
vote
2
answers
956
views
2
answers
Samtools 1.3 mpileup result < >
next-gen samtools rna-seq pileup sequencing written 3.0 years ago by yanweng • 30 • updated 4 months ago by RamRS ♦ 20k
0
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2
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2.0k
views
2
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Mapping Reads Back To Assembly Contigs To Generate Pileup
pileup bwa coverage written 6.9 years ago by Sen • 0 • updated 5 months ago by Biostar ♦♦ 20
7
votes
3
answers
822
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3
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Generating pileup from .bam file
genome indels pileup written 9 months ago by ajuric101 • 20
1
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0
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219
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0
answers
SRA tootkit to download pileup formats using SRR accessions
sratoolkit next-gen pileup sequencing written 10 months ago by Paul • 70
0
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0
answers
269
views
0
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pileup vs. IGV insertion locations
pileup igv written 10 months ago by blur • 90
0
votes
0
answers
398
views
0
answers
How to calculate standard deviation of coverage for each scaffold in a pileup file?
perl coverage pileup sequencing written 11 months ago by PollardMD • 0
0
votes
1
answer
794
views
1
answer
Finding SNPs in population data: help with pipeline
genome population snp pileup written 22 months ago by Alex • 0 • updated 14 months ago by Pierre Lindenbaum ♦ 116k
8
votes
2
answers
5.2k
views
7 follow
2
answers
Samtools Mpileup And Overlapping Paired-End Reads
paired-end pileup rna-seq written 5.2 years ago by alpha2zee • 100 • updated 15 months ago by Owen S. • 340
0
votes
0
answers
1.1k
views
0
answers
Pysam read reference positions and sequence do not match
samtools pysam pileup tview written 16 months ago by rlorigro • 0 • updated 15 months ago by Biostar ♦♦ 20
5
votes
1
answer
730
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5 follow
1
answer
Nucleotide coverage if >5 reads
alignment sequence pileup written 16 months ago by Vca80553 • 0 • updated 16 months ago by Pierre Lindenbaum ♦ 116k
0
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1
answer
411
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1
answer
Samtools pileup problem.
rna-seq pileup written 17 months ago by salvatore.digiorgio • 10
4
votes
1
answer
747
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1
answer
Samtools mpileup output: missing fields?
rnaseq samtools pileup mpileup written 17 months ago by cjaln • 0 • updated 17 months ago by John Marshall • 1.5k
1
vote
1
answer
737
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1
answer
pileup format: what's the difference between upper and lower case?
samtools pileup written 21 months ago by blur • 90 • updated 21 months ago by Devon Ryan ♦ 88k
0
votes
1
answer
580
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1
answer
Filter pileup file for completeness
filter samtools completeness pileup written 2.4 years ago by AP • 90
2
votes
1
answer
2.1k
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1
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What does "pileup" mean in the context of MACS2 peak caller?
macs2 chip-seq pileup written 22 months ago by ariel.balter • 130 • updated 22 months ago by Santosh Anand ♦ 4.6k
1
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2
answers
2.0k
views
2
answers
filtering pileup file with samtools for SomaticSniper
somaticsniper samtools snp pileup written 3.4 years ago by TriS • 3.6k • updated 2.3 years ago by guangxujin • 0
1
vote
1
answer
797
views
1
answer
Pileup format parsing difficulty
samtools pileup written 2.4 years ago by maheetha.b • 60 • updated 2.4 years ago by John Marshall • 1.5k
16
votes
3
answers
6.1k
views
5 follow
3
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Genomic Coverage - Samtool's undocumented "depth" verses the poorly documented pileup.
pileup samtools coverage mpileup depth written 4.6 years ago by John ♦ 12k • updated 3.0 years ago by Shicheng Guo • 7.4k
8
votes
1
answer
2.8k
views
1
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(samtools) Filtering and interpreting >100 QUAL scores
vcf phred-scaled qual samtools pileup written 3.1 years ago by umn_bist • 320 • updated 3.1 years ago by Brice Sarver • 2.5k
1
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1
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3.8k
views
1
answer
understanding pysam pileup()
pysam pileup written 3.1 years ago by geek_y ♦ 9.1k
0
votes
0
answers
2.0k
views
0
answers
Calculate nucleotide frequency for a position in a bam file using Bio::DB Perl module
perl bioperl pileup myposts written 3.3 years ago by Sameer Chavan • 0
1
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3
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2.6k
views
3
answers
How To Pile Up Multiple Bed Files Into 1 File
bed intersect sam bam pileup written 6.8 years ago by Hanfei Sun • 60 • updated 3.3 years ago by Biostar ♦♦ 20
1
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1
answer
3.9k
views
1
answer
Masked Or Unmasked Dna Reference For Sam2Vcf.Pl
vcf samtools pileup written 7.8 years ago by Pi • 510 • updated 3.4 years ago by Biostar ♦♦ 20
2
votes
1
answer
1.7k
views
1
answer
Samtools mpileup not providing correct count info
simulation samtools mpileup pileup written 3.5 years ago by jgbradley1 • 90
5
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1
answer
1.5k
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1
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Rsamtools::pileup gives inconsistent number of reads
rsamtools pileup written 4.0 years ago by inesdesantiago • 150
3
votes
1
answer
3.4k
views
1
answer
Is the MACS pileup output normalized
macs normalization pileup written 4.4 years ago by ivoryec • 60
3
votes
1
answer
2.7k
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1
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meaning of new symbols in samtools mpileup format?
samtools snp pileup htslib written 4.5 years ago by Dejian • 1.2k • updated 4.5 years ago by Devon Ryan ♦ 88k
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