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MACS
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MeDIP seq data analysis
medip_seq
Macs
5.7 years ago
Mar Mar
▴ 20
0
votes
1
reply
1.4k
views
How to find sites with H3K27me3 loss?
Chip Seq
Histone
H3K27me3
macs
diffbind
6.2 years ago
researcher
• 0
2
votes
3
replies
10k
views
DiffBind for ATAC-seq
atac-seq
diffbind
macs2
macs
peak finding
updated 8.7 years ago by
BioinfGuru
▴ 70 • written 9.3 years ago by
igor
▴ 50
1
vote
2
replies
2.8k
views
MEDIPS vs MACS: why does MEDIPS generate more conservative p-values
p-value
medips
MACS
updated 10.5 years ago by
Lukas Chavez
▴ 570 • written 10.5 years ago by
tptacek3050
• 0
4 results • Page
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Comment: DECIPHER DesignProbes unable to design FISH-probes
by
Erik Wright
▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Michael Love
43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment
by
Michael Love
43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA
by
Gordon Smyth
53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR
by
James W. MacDonald
68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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