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JASPAR
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Plotting motif enrichment vs background - Jaspar core vertebrates
pwm
motifs
jaspar
meme
motif analysis
5.4 years ago
rbronste
▴ 60
2
votes
0
replies
1.6k
views
motifDb PFM vs JASPAR database PFM: conversion to PWM
pwm
pfm
jaspar
motifdb
updated 5.3 years ago by
Bioconductor Community
0 • written 5.4 years ago by
chrisclarkson100
▴ 50
0
votes
2
replies
817
views
trouble accessing JASPAR2018.sqlite
jaspar
rsqlite
updated 6.2 years ago by
James W. MacDonald
65k • written 6.2 years ago by
m.d.shapiro
• 0
2
votes
1
reply
2.3k
views
Error: unable to find an inherited method for function searchSeq for signature matrix
pwm
tfbstools
jaspar
updated 6.6 years ago by
Ge Tan
▴ 20 • written 6.6 years ago by
chrisclarkson100
▴ 50
0
votes
1
reply
1.3k
views
TF ANALYSIS USING JASPAR
transcription
jaspar
updated 7.1 years ago by
James W. MacDonald
65k • written 7.1 years ago by
nia
▴ 30
2
votes
6
replies
2.0k
views
Identifying TF binding sites (Motifdb + TxDb.Hsapiens.UCSC.hg19.knownGene)
motifdb
JASPAR
transcription factor binding site
8.5 years ago
Lisa Hopcroft
▴ 40
0
votes
1
reply
1.3k
views
TFBSTools access to JASPAR2014 via getMatrixSet()
tfbstools
jaspar
updated 8.6 years ago by
Ge Tan
▴ 20 • written 8.6 years ago by
JasonLouisStein
• 0
0
votes
3
replies
1.7k
views
Problem with rGADEM & MotIV - one matrix consensus after GADEM() and one plot enrichment motif
rgadem
motiv
chipseq
jaspar
updated 8.9 years ago by
emercier
• 0 • written 9.0 years ago by
w.jarassier
• 0
8 results • Page
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Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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