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bam file
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reset
1
vote
24
replies
4.8k
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GenomicAlignments - extracting sequence signatures from bam file
bam file
HIV
cytosine
6.6 years ago
achaillon
• 0
1
vote
19
replies
25k
views
Import bamfiles for RNAsequencing analysis
R
rnaseq
bam file
updated 6.0 years ago by
Gordon Smyth
50k • written 6.0 years ago by
Merlin
▴ 10
4
votes
5
replies
1.7k
views
No BAM option in readAligned from the ShortRead package
bioconductor
shortread
bam file
nucler
updated 6.2 years ago by
Dario Strbenac
★ 1.5k • written 6.2 years ago by
jfgout
▴ 10
2
votes
2
replies
1.3k
views
CSAW : at which bam files are corresponding “up” regions
csaw
up regions
bam file
gain and loss of enrichment
updated 8.1 years ago by
Aaron Lun
★ 28k • written 8.1 years ago by
JoannaF
▴ 10
1
vote
5
replies
3.8k
views
Rsamtools: system.file no file found
rsamtools
bam file
updated 6.7 years ago by
Martin Morgan
25k • written 6.7 years ago by
seungjoon.kim
• 0
0
votes
2
replies
1.1k
views
BAM file into R from Illumina
bam file
STAR
Illumina
updated 6.0 years ago by
ta_awwad
▴ 10 • written 6.0 years ago by
soheilazareie
• 0
0
votes
1
reply
1.2k
views
Questions for MEDIPS getPairedGRange function in MEDIPS.readRegionsFile.R
medips
bam file
7.9 years ago
fkuo
▴ 10
0
votes
0
replies
1.5k
views
Merge two BAM files into one paired-end file
paired-end reads
bam file
6.4 years ago
ioannis.vardaxis
▴ 30
8 results • Page
1 of 1
Recent ...
Replies
Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq
by
james.zhang20
• 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Answer: Deseq2 and Normalization of RNA sequencing data
by
ATpoint
★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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