Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Showing: pysam • reset
or   Classic search
<prev • 70 results • page 1 of 3 • next >
3
votes
1
answer
202
views
1
answer
pysam difference between template_length and reference_length
genome next-gen pysam written 5 weeks ago by Medhat ♦ 8.0k • updated 5 weeks ago by Devon Ryan ♦ 86k
0
votes
0
answers
148
views
0
answers
pysam: How do I type an AlignedSegment in Cython?
cython pysam written 7 weeks ago by Click downvote • 650 • updated 7 weeks ago by Biostar ♦♦ 20
0
votes
0
answers
144
views
0
answers
How to ignore truncation error with PySam?
python sam alignment mapping pysam written 8 weeks ago by O.rka • 70 • updated 7 weeks ago by Biostar ♦♦ 20
0
votes
0
answers
153
views
0
answers
appropriate way to use pysam.depth
python pysam written 10 weeks ago by Medhat ♦ 8.0k
2
votes
2
answers
1.8k
views
2
answers
Problem iterating through BAM file using pysam
python sam bam forloop pysam written 2.8 years ago by c9r1y • 0 • updated 3 months ago by RamRS ♦ 19k
7
votes
3
answers
5.3k
views
3
answers
cannot import pysam. Module has no attribute error
samtools api python pysam written 3.4 years ago by QVINTVS_FABIVS_MAXIMVS • 2.2k • updated 3 months ago by RamRS ♦ 19k
1
vote
0
answers
1.1k
views
0
answers
pysam truncated file error
python samtools pysam written 17 months ago by pupatel • 0 • updated 3 months ago by Biostar ♦♦ 20
3
votes
2
answers
329
views
2
answers
Get all the nucleotides from a bam file that is aligning to specific position in the genome
genome samtools alignment position pysam written 4 months ago by rsafavi • 40
1
vote
1
answer
397
views
1
answer
pysam pileup: what reads appear in the pileup?
software genome alignment pysam sequencing written 5 months ago by aostern • 30
1
vote
1
answer
185
views
1
answer
pysam: Use read ID to access location
python pysam bam file written 6 months ago by bd2810 • 0
5
votes
2
answers
798
views
2
answers
How to count the total aligned bases in BAM?
python bam pysam pybedtools written 6 months ago by vw • 10
0
votes
0
answers
341
views
0
answers
How to compute target aligned reads/total aligned reads (read enrichment) with Python?
bed bam pybedtools pysam written 6 months ago by vw • 10
4
votes
1
answer
370
views
5 follow
1
answer
output differents value between samtools depth and pysam
python pysam written 6 months ago by electronsource75 • 10 • updated 6 months ago by Devon Ryan ♦ 86k
5
votes
1
answer
3.1k
views
7 follow
1
answer
python script error: ImportError: No module named pysam
.py overlapsignature pysam pythonscript written 7 months ago by jaqx008 • 40 • updated 7 months ago by Carlos Borroto • 1.8k
3
votes
1
answer
507
views
1
answer
calculate fragments depth with pysam
genome python samtools pysam written 7 months ago by electronsource75 • 10
2
votes
2
answers
875
views
2
answers
Pysam fetch for records not exists in VCF files
pysam fetch written 2.2 years ago by always_learning • 930 • updated 7 months ago by Vasisht • 150
1
vote
1
answer
756
views
1
answer
iterate over reads in .SAM file with pysam - IndexError: list index out of range
python pysam sam written 8 months ago by Florian BERNARD • 20 • updated 8 months ago by Pierre Lindenbaum ♦ 115k
5
votes
2
answers
957
views
5 follow
2
answers
How to use pysam to execute "samtools fastq xxx.sam>xxx.fastq"
samtools pysam written 8 months ago by Zhixue • 10
0
votes
0
answers
265
views
0
answers
Estimate Fragment Size from Single End ChipSeq with (pysam, htseq lib or deeptools API)
htseq deeptools pysam written 10 months ago by ZheFrench • 150
15
votes
3
answers
2.3k
views
3
answers
Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any suggestions?
sam bam pysam reference_id written 2.5 years ago by kirannbishwa01 • 890 • updated 11 months ago by Matt Shirley ♦ 8.7k
0
votes
0
answers
945
views
0
answers
Pysam read reference positions and sequence do not match
samtools pysam pileup tview written 14 months ago by rlorigro • 0 • updated 13 months ago by Biostar ♦♦ 20
0
votes
0
answers
690
views
0
answers
Create small BAM file with pysam and iterate over reads
samtool bam pysam written 13 months ago by lebedana21 • 0
0
votes
1
answer
500
views
1
answer
Error in pysam: trying to read BAM file using CYTHON
next-gen alignment pysam written 14 months ago by ammarsabir15 • 50 • updated 14 months ago by Devon Ryan ♦ 86k
0
votes
1
answer
620
views
1
answer
pysam not plotting exact values for coverage
alignment pysam coverage written 15 months ago by ammarsabir15 • 50 • updated 15 months ago by Devon Ryan ♦ 86k
1
vote
0
answers
768
views
0
answers
Error during htseq-count
htseq-count star pysam written 15 months ago by baffiak1902 • 10
6
votes
1
answer
2.4k
views
1
answer
pysam: filtering reads based on flag
python samtools pysam hts written 3.4 years ago by QVINTVS_FABIVS_MAXIMVS • 2.2k • updated 17 months ago by Biostar ♦♦ 20
2
votes
1
answer
487
views
1
answer
Extract R2F1 reads
samtools pysam structural variation written 17 months ago by IP • 500
11
votes
2
answers
793
views
2
answers
Pysam changes bam format when printing
pysam written 18 months ago by grant.hovhannisyan • 1.3k • updated 18 months ago by i.sudbery • 2.8k
2
votes
1
answer
813
views
1
answer
Add color tag to bam alignedReads using pysam
pysam rna-seq igv written 19 months ago by pyKey • 40
37
votes
4
answers
6.2k
views
4
answers
Tool: pybam - 100% python BAM reader
htspython python bam pysam tool written 2.7 years ago by John ♦ 12k
<prev • 70 results • page 1 of 3 • next >
Recent Votes
Recent Locations • All »
  • United States, just now
  • United States, 2 minutes ago
  • UK, U. Glasgow, 3 minutes ago
  • St. Louis, MO, 4 minutes ago
  • Ireland, 4 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: 1121 users visited in the last hour