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motifdb
•
reset
2
votes
6
replies
2.3k
views
Identifying TF binding sites (Motifdb + TxDb.Hsapiens.UCSC.hg19.knownGene)
motifdb
JASPAR
transcription factor binding site
9.4 years ago
Lisa Hopcroft
▴ 40
0
votes
1
reply
1.5k
views
ChIPpeakAnno "examplePattern.fa" file
rGADEM
MotifDb
rGADEM
MotifDb
updated 12.0 years ago by
José Luis Lavín
▴ 80 • written 12.0 years ago by
Paul Shannon
▴ 750
2
votes
16
replies
3.0k
views
MotifDb missing some FlyFactor Motifs
Motifdb
updated 3.0 years ago by
gunjan.dikshit
• 0 • written 4.8 years ago by
snystrom
▴ 10
0
votes
1
reply
1.5k
views
problem installing biocLite, MotifDb.
motifdb
bioclite
updated 8.7 years ago by
Hervé Pagès
16k • written 8.7 years ago by
mirzabiotech2000
• 0
3
votes
3
replies
1.8k
views
Fail to load "MotifDb" package
MotifDb
library
load
updated 8.0 years ago by
Paul Shannon
▴ 470 • written 8.0 years ago by
Pengcheng Yang
▴ 60
0
votes
2
replies
1.8k
views
How to make a MotifDb object from pwm/pfm files?
motifdb
updated 7.5 years ago by
Paul Shannon
▴ 470 • written 7.5 years ago by
Yiwei Niu
▴ 20
1
vote
1
reply
1.4k
views
total number of unique transcription factors in MotifDB
motifdb
updated 7.4 years ago by
Paul Shannon
▴ 470 • written 7.4 years ago by
scotronq
• 0
0
votes
1
reply
1.9k
views
promoter prediction
Transcription
MotIV
MotifDb
Transcription
MotIV
MotifDb
updated 12.3 years ago by
Jing Huang
▴ 380 • written 12.3 years ago by
Paul Shannon
▴ 750
0
votes
5
replies
2.9k
views
Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
BSgenome
convert
BSgenome
PWMEnrich
MotifDb
updated 10.5 years ago by
Robert Stojnic
▴ 80 • written 10.5 years ago by
deepti anand
▴ 50
0
votes
1
reply
2.4k
views
non-numeric argument to binary operator error with makeBackground() in PWMEnrich
pwmenrich
MotifDB
updated 9.3 years ago by
Robert Stojnic
▴ 50 • written 9.4 years ago by
elliott77
• 0
2
votes
1
reply
4.6k
views
Please suggest any good motif Discovery tool in R-Bioconductor.
motif
motifdb
meme
updated 9.3 years ago by
Hervé Pagès
16k • written 9.3 years ago by
vinod.acear
▴ 50
0
votes
0
replies
1.6k
views
ChIPpeakAnno
rGADEM
MotIV
MotifDb
rGADEM
MotIV
MotifDb
11.0 years ago
Bahar
▴ 10
1
vote
0
replies
1.5k
views
question on MotifDb package
Transcription
MotifDb
Transcription
MotifDb
11.0 years ago
Paul Shannon
▴ 470
2
votes
0
replies
2.2k
views
motifDb PFM vs JASPAR database PFM: conversion to PWM
pwm
pfm
jaspar
motifdb
updated 6.2 years ago by
Bioconductor Community
0 • written 6.3 years ago by
chrisclarkson100
▴ 50
0
votes
0
replies
924
views
Research questions that are answered using MotifDb
MotifDb
MotifDb
11.2 years ago
T M
▴ 10
0
votes
3
replies
1.7k
views
motif scanning using position frequncy matrix of motif in a given set of DNAstringset sequnces?.
motifdb
matchpwm
motif
pwmenrich
pwm
9.3 years ago
vinod.acear
▴ 50
16 results • Page
1 of 1
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Replies
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
by
James W. MacDonald
68k
You've got it backwards. It should be ``` adult_res_df$symbol <- mapIds(org.Rn.eg.db, keys = rownames(adult_res_df), column = "ENSEMBL"…
Comment: DESeq2 swap ensembl gene id rownames with gene symbol column
by
Erika
• 0
Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…
Answer: Clarification on GOALL / GO2ALLORFs mapping
by
James W. MacDonald
68k
It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…
Comment: Can't post a question?
by
DavideSant
• 0
Thank you, this was super useful!
Comment: Error in retrieving clinical data
by
silickas
• 0
Thank you for the reply. I will try to do that next time. This time instead, I used the GenomicDataCommons package to download clinical dat…
Votes
Comment: Can't post a question?
Answer: Limma - Complex 2-way multi-level contrast with paired samples
Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
Answer: Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malf
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