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ChIPSeqData
•
reset
0
votes
0
replies
338
views
ChIP peaks comparison
ChIPSeqData
genomes
ChIPSeq
13 months ago
user_bioinfo
• 0
0
votes
0
replies
546
views
hichip fragments extraction chip seq
ChIPSeqData
interact
GenomicRanges
HiC
16 months ago
user_bioinfo
• 0
0
votes
0
replies
525
views
need help with Diffbind multiple groups
DiffBind
ChIPSeqData
19 months ago
Dinesh
• 0
3
votes
1
reply
894
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind
ChIPSeqData
DESeq2
updated 19 months ago by
Michael Love
43k • written 19 months ago by
marcusn
▴ 10
0
votes
1
reply
4.9k
views
bwa mem2 index genome - chipseq analysis
Genome
bwamem
ChIPSeqData
index
updated 2.8 years ago by
ATpoint
★ 5.0k • written 2.8 years ago by
Maka
• 0
0
votes
2
replies
1.5k
views
New to ChipSeq getting 0 peaks using dba()
ChipSeq
ChIPSeqData
chipseqDB
3.0 years ago
stacy.genovese
• 0
0
votes
3
replies
1.7k
views
CountOverlap
GeneExpression
ChIPSeqData
updated 3.2 years ago by
James W. MacDonald
68k • written 3.2 years ago by
michela
▴ 20
0
votes
2
replies
3.1k
views
DiffBind bUseSummarizeOverlaps error - the rownames and colnames of the supplied assay(s) must be NULL or identical to those of the SummarizedExper…
DiffBind
ChIPSeqData
updated 3.5 years ago by
millerh1
▴ 10 • written 4.0 years ago by
sfpacman
• 0
0
votes
0
replies
880
views
ChIPpeakAnno: No seqlevelsStyle compatible entry
ChIPSeqData
4.1 years ago
tom.dean
• 0
5
votes
3
replies
2.9k
views
importing BED with non-integer values
ChIPseeker
ChIPSeqData
updated 5.1 years ago by
James W. MacDonald
68k • written 5.1 years ago by
Morris
▴ 10
10 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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Hervé Pagès
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