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motifdb
•
reset
2
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6
replies
2.0k
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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
ChIPpeakAnno "examplePattern.fa" file
rGADEM
MotifDb
rGADEM
MotifDb
updated 11.1 years ago by
José Luis Lavín
▴ 80 • written 11.2 years ago by
Paul Shannon
▴ 750
2
votes
16
replies
2.3k
views
MotifDb missing some FlyFactor Motifs
Motifdb
updated 2.1 years ago by
gunjan.dikshit
• 0 • written 3.9 years ago by
snystrom
▴ 10
0
votes
1
reply
1.3k
views
problem installing biocLite, MotifDb.
motifdb
bioclite
updated 7.8 years ago by
Hervé Pagès
16k • written 7.8 years ago by
mirzabiotech2000
• 0
3
votes
3
replies
1.5k
views
Fail to load "MotifDb" package
MotifDb
library
load
updated 7.1 years ago by
Paul Shannon
▴ 470 • written 7.1 years ago by
Pengcheng Yang
▴ 60
0
votes
2
replies
1.5k
views
How to make a MotifDb object from pwm/pfm files?
motifdb
updated 6.6 years ago by
Paul Shannon
▴ 470 • written 6.6 years ago by
Yiwei Niu
▴ 20
1
vote
1
reply
1.1k
views
total number of unique transcription factors in MotifDB
motifdb
updated 6.5 years ago by
Paul Shannon
▴ 470 • written 6.5 years ago by
scotronq
• 0
0
votes
1
reply
1.7k
views
promoter prediction
Transcription
MotIV
MotifDb
Transcription
MotIV
MotifDb
updated 11.4 years ago by
Jing Huang
▴ 380 • written 11.4 years ago by
Paul Shannon
▴ 750
0
votes
5
replies
2.5k
views
Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
BSgenome
convert
BSgenome
PWMEnrich
MotifDb
updated 9.6 years ago by
Robert Stojnic
▴ 80 • written 9.6 years ago by
deepti anand
▴ 50
0
votes
1
reply
2.2k
views
non-numeric argument to binary operator error with makeBackground() in PWMEnrich
pwmenrich
MotifDB
updated 8.5 years ago by
Robert Stojnic
▴ 50 • written 8.5 years ago by
elliott77
• 0
2
votes
1
reply
3.8k
views
Please suggest any good motif Discovery tool in R-Bioconductor.
motif
motifdb
meme
updated 8.4 years ago by
Hervé Pagès
16k • written 8.4 years ago by
vinod.acear
▴ 50
0
votes
0
replies
1.4k
views
ChIPpeakAnno
rGADEM
MotIV
MotifDb
rGADEM
MotIV
MotifDb
10.1 years ago
Bahar
▴ 10
1
vote
0
replies
1.3k
views
question on MotifDb package
Transcription
MotifDb
Transcription
MotifDb
10.1 years ago
Paul Shannon
▴ 470
2
votes
0
replies
1.5k
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
0
replies
776
views
Research questions that are answered using MotifDb
MotifDb
MotifDb
10.3 years ago
T M
▴ 10
0
votes
3
replies
1.4k
views
motif scanning using position frequncy matrix of motif in a given set of DNAstringset sequnces?.
motifdb
matchpwm
motif
pwmenrich
pwm
8.4 years ago
vinod.acear
▴ 50
16 results • Page
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Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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