Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Showing selected topics • reset
or   Classic search
<prev • 67 results • page 1 of 3 • next >
0
votes
0
answers
125
views
0
answers
Should there be any change in the quality field of a pileup line when removing deletions / reference skips ?
indels reference skips pileup insertion deletion written 6 weeks ago by amitfinkelstein • 0 • updated 6 weeks ago by marsaeejuriya • 0
0
votes
0
answers
131
views
0
answers
Check for deletions at particular neighboring positions - Pysam pileup or fetch
deletions deleted bases pysam pileup fetch written 8 weeks ago by z.klinovska • 0
0
votes
0
answers
155
views
0
answers
Visualize pileup data
gfp pileup written 10 weeks ago by bsmith030465 • 150 • updated 10 weeks ago by Friederike ♦ 6.7k
0
votes
0
answers
195
views
0
answers
Filtering pileup from site lists
genome alignment refseq pileup written 3 months ago by Eliran Turgeman • 10 • updated 11 weeks ago by Biostar ♦♦ 20
0
votes
0
answers
192
views
0
answers
pysam pileup doesn't work when contig name is specified?
pysam pileup coverage depth written 7 months ago by dp • 40
0
votes
0
answers
440
views
0
answers
Pysam pileup dropping reads
pysam pileup written 12 months ago by yryan • 0
0
votes
0
answers
268
views
0
answers
Call all insertions and deletions in bam file
pileup written 12 months ago by Mick • 10
0
votes
1
answer
829
views
1
answer
Difference between Pysam Pileup and Fetch
reads bam pysam pileup written 16 months ago by aalith • 10 • updated 13 months ago by castaway1990 • 0
2
votes
1
answer
586
views
1
answer
Finding all bases at a specific genomic position
pysam pileup written 18 months ago by dodani • 0
3
votes
2
answers
1.1k
views
2
answers
samtools mpileup keeps making an empty file
samtools pileup written 2.0 years ago by James Reeve • 100 • updated 2.0 years ago by gab • 20
5
votes
1
answer
8.0k
views
5 follow
1
answer
Pileup To Vcf Format
vcf pileup written 9.8 years ago by Pri • 20 • updated 2.2 years ago by Mbillah • 120
2
votes
4
answers
1.6k
views
5 follow
4
answers
Popoolation variance-sliding.pl output shows only zero value
popoolation tajima's pi samtools pileup tajima's d written 3.6 years ago by bruseq • 40 • updated 2.2 years ago by alex.zaccaron • 190
1
vote
2
answers
1.4k
views
2
answers
Samtools 1.3 mpileup result < >
next-gen samtools rna-seq pileup sequencing written 4.9 years ago by yanweng • 40 • updated 2.3 years ago by _r_am ♦ 32k
0
votes
2
answers
2.7k
views
2
answers
Mapping Reads Back To Assembly Contigs To Generate Pileup
pileup bwa coverage written 8.8 years ago by Sen • 0 • updated 2.3 years ago by Biostar ♦♦ 20
8
votes
3
answers
2.9k
views
3
answers
Generating pileup from .bam file
genome indels pileup written 2.7 years ago by ajuric101 • 30
1
vote
0
answers
525
views
0
answers
SRA tootkit to download pileup formats using SRR accessions
sratoolkit next-gen pileup sequencing written 2.8 years ago by Paul • 80
0
votes
0
answers
697
views
0
answers
pileup vs. IGV insertion locations
pileup igv written 2.8 years ago by blur • 150
0
votes
0
answers
694
views
0
answers
How to calculate standard deviation of coverage for each scaffold in a pileup file?
perl coverage pileup sequencing written 2.8 years ago by PollardMD • 0
0
votes
1
answer
1.3k
views
1
answer
Finding SNPs in population data: help with pipeline
genome population snp pileup written 3.7 years ago by Alex • 0 • updated 3.2 years ago by Pierre Lindenbaum ♦ 133k
9
votes
2
answers
7.1k
views
7 follow
2
answers
Samtools Mpileup And Overlapping Paired-End Reads
paired-end pileup rna-seq written 7.2 years ago by alpha2zee • 120 • updated 3.2 years ago by Owen S. • 350
0
votes
0
answers
3.3k
views
0
answers
Pysam read reference positions and sequence do not match
samtools pysam pileup tview written 3.3 years ago by rlorigro • 10 • updated 3.2 years ago by Biostar ♦♦ 20
5
votes
1
answer
1.4k
views
5 follow
1
answer
Nucleotide coverage if >5 reads
alignment sequence pileup written 3.3 years ago by Vca80553 • 0 • updated 3.3 years ago by Pierre Lindenbaum ♦ 133k
0
votes
1
answer
919
views
1
answer
Samtools pileup problem.
rna-seq pileup written 3.3 years ago by salvatore.digiorgio • 10
4
votes
1
answer
1.3k
views
1
answer
Samtools mpileup output: missing fields?
rnaseq samtools pileup mpileup written 3.4 years ago by cjaln • 0 • updated 3.4 years ago by John Marshall ♦ 2.2k
1
vote
1
answer
1.6k
views
1
answer
pileup format: what's the difference between upper and lower case?
samtools pileup written 3.7 years ago by blur • 150 • updated 3.7 years ago by Devon Ryan ♦ 98k
0
votes
1
answer
864
views
1
answer
Filter pileup file for completeness
filter samtools completeness pileup written 4.4 years ago by AP • 100
2
votes
1
answer
4.7k
views
1
answer
What does "pileup" mean in the context of MACS2 peak caller?
macs2 chip-seq pileup written 3.8 years ago by ariel.balter • 140 • updated 3.8 years ago by Santosh Anand ♦ 5.2k
1
vote
2
answers
3.0k
views
2
answers
filtering pileup file with samtools for SomaticSniper
somaticsniper samtools snp pileup written 5.3 years ago by TriS • 4.3k • updated 4.2 years ago by guangxujin • 0
1
vote
1
answer
1.1k
views
1
answer
Pileup format parsing difficulty
samtools pileup written 4.3 years ago by maheetha.b • 70 • updated 4.3 years ago by John Marshall ♦ 2.2k
16
votes
3
answers
7.2k
views
5 follow
3
answers
Genomic Coverage - Samtool's undocumented "depth" verses the poorly documented pileup.
pileup samtools coverage mpileup depth written 6.5 years ago by John ♦ 12k • updated 5.0 years ago by Shicheng Guo • 8.5k
<prev • 67 results • page 1 of 3 • next >
Recent Votes
Recent Locations • All »
  • Israel, 1 minute ago
  • Russia, Moscow/Novosibirsk, 3 minutes ago
  • Sweden, 3 minutes ago
  • Barcelona, 9 minutes ago
  • VIB, Ghent, Belgium, 9 minutes ago
Recent Awards • All »
Recent Replies
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1068 users visited in the last hour
_