Showing : Transcription • reset
0
votes
0
replies
592
views
Is there a Bioconductor package to calculate TFs regulatory networks?
TFs Transcription regulator
2.9 years ago OliverBoynton • 0
0
votes
2
replies
2.2k
views
Getting annotation into GOstat
Transcription Transcription
updated 7.2 years ago by • 0 • written 12.5 years ago by ★ 6.0k
0
votes
1
reply
1.4k
views
Reference annotation file contains only transcript and CDS information, how to analyze the different expression of genes?
transcription hisat2
7.4 years ago zoukai3412085 • 0
0
votes
0
replies
1.4k
views
Job: PhD computational position - Milan
epigenetics transcription computational biology Job
7.8 years ago mattia pelizzola ▴ 200
1
vote
4
replies
1.5k
views
DESeq2: Tests of log2 differences
deseq2 rna-seq transcription dgea
7.9 years ago fabian ▴ 40
1
vote
0
replies
1.1k
views
Bioconductor for predicting transcription factors from a gene list?
transcription transcriptdb
8.0 years ago hkarakurt ▴ 20
0
votes
1
reply
1.7k
views
TF ANALYSIS USING JASPAR
transcription jaspar
updated 8.0 years ago by 68k • written 8.0 years ago by ▴ 30
0
votes
3
replies
2.7k
views
Gramene now available via biomaRt
SNP Transcription biomaRt Vega SNP Transcription biomaRt Vega
updated 8.5 years ago by • 0 • written 18.2 years ago by ▴ 580
1
vote
0
replies
1.8k
views
News: BioCAsia, 4th November 2016, Brisbane, Australia
conference transcription epigenomics visualization infrastructure News
8.8 years ago Matthew Ritchie ▴ 1000
3
votes
0
replies
2.0k
views
News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
9.9 years ago • updated 9.7 years ago Matthew Ritchie ▴ 1000
0
votes
2
replies
4.2k
views
Bioconductor 2.12 is released
BiocViews aCGH SNP Transcription Sequencing Microarray Coverage Alignment Annotation GO
updated 9.8 years ago by • 0 • written 12.1 years ago by ★ 8.2k
4
votes
0
replies
1.7k
views
News: Hands-on Bioconductor course, 7 Sept 2015, Tokyo
sequencing transcription variantfiltering annotation News
9.9 years ago Matthew Ritchie ▴ 1000
0
votes
1
reply
2.7k
views
Interspecies differential expression of orthologs with Edger
Transcription edgeR Transcription edgeR
10.7 years ago Tim Triche ★ 4.2k
0
votes
11
replies
2.6k
views
Interspecies differential expression of orthologs with Edger
Transcription edgeR Transcription edgeR
updated 10.7 years ago by 52k • written 10.7 years ago by ▴ 140
0
votes
1
reply
1.5k
views
rsqlite for windows from fhcrc
Transcription BiocInstaller Transcription BiocInstaller
updated 10.7 years ago by 25k • written 10.7 years ago by ★ 6.5k
0
votes
0
replies
1.4k
views
Useful information about Ensembl release 76 mart databases
Transcription zebrafish Transcription zebrafish
10.7 years ago Thomas Maurel ▴ 800
0
votes
1
reply
1.9k
views
An. Gambie RNA-Seq differential expression using gage and pathview
Transcription Annotation Normalization gage pathview Transcription Annotation Normalization
updated 10.8 years ago by ▴ 20 • written 10.8 years ago by ★ 1.6k
0
votes
0
replies
1.3k
views
An. Gambie RNA-Seq differential expression using gage and pathview
Transcription Normalization gage Transcription Normalization gage
10.8 years ago Saul Lozano ▴ 20
0
votes
4
replies
1.7k
views
Limma package and minimal number of genes
Transcription limma Transcription limma
updated 10.9 years ago by ★ 1.3k • written 10.9 years ago by ▴ 10
0
votes
1
reply
1.4k
views
total count filter cutoff
Transcription Transcription
updated 11.0 years ago by ▴ 20 • written 11.0 years ago by ★ 13k
0
votes
1
reply
2.4k
views
Deseq2-help
Transcription DESeq DESeq2 Transcription DESeq DESeq2
updated 11.1 years ago by ▴ 30 • written 11.1 years ago by 43k
1
vote
0
replies
1.5k
views
question on MotifDb package
Transcription MotifDb Transcription MotifDb
11.1 years ago Paul Shannon ▴ 470
0
votes
7
replies
2.5k
views
Low number of replicates DESeq
Transcription GO DESeq2 Transcription GO DESeq2
updated 11.2 years ago by 43k • written 11.2 years ago by ▴ 130
0
votes
0
replies
1.6k
views
questions related to DiffBind package
Transcription Normalization DiffBind Transcription Normalization DiffBind
11.2 years ago Rory Stark ★ 5.2k
0
votes
1
reply
1.8k
views
DiffBind loading Problem
Transcription ChIPSeq chipseq DiffBind Transcription ChIPSeq chipseq DiffBind
11.2 years ago Rory Stark ★ 5.2k
0
votes
4
replies
1.8k
views
Rcade analysis without ChIP-seq replicates
Transcription Rcade Transcription Rcade
updated 11.2 years ago by ▴ 60 • written 11.2 years ago by ▴ 30
0
votes
2
replies
2.5k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 11.3 years ago by ★ 6.8k • written 11.3 years ago by ▴ 30
0
votes
1
reply
2.2k
views
Analysis of Affymetrix Human Gene 2.0 ST arrays
Transcription Annotation Normalization GO hgu133plus2 affy PROcess Category Transcription
updated 11.4 years ago by ▴ 80 • written 11.4 years ago by ▴ 20
0
votes
0
replies
4.4k
views
Bioconductor 2.13 is released
BiocViews aCGH SNP Transcription Sequencing miRNA Microarray Genetics Proteomics Coverage
11.5 years ago Dan Tenenbaum ★ 8.2k
0
votes
0
replies
1.5k
views
DNaseR - a new Bioconductor package for DNase-seq digital genomic footprinting
Transcription DNaseR Transcription DNaseR
11.6 years ago Pedro Madrigal ▴ 20
0
votes
0
replies
3.2k
views
DiffBind questions
Transcription Cancer DiffBind MMDiff Transcription Cancer DiffBind MMDiff
11.7 years ago Rory Stark ★ 5.2k
0
votes
2
replies
4.3k
views
TranscriptDb of GENCODE Genes
Transcription Annotation Transcription Annotation
updated 11.7 years ago by ★ 7.2k • written 11.7 years ago by ★ 1.6k
1
vote
4
replies
1.8k
views
Is GO.db out of date?
Transcription GO Transcription GO
12.1 years ago chawla ▴ 190
0
votes
2
replies
1.5k
views
matchPWM() questions
Transcription Transcription
updated 12.2 years ago by 16k • written 12.2 years ago by ▴ 340
0
votes
0
replies
1.3k
views
BitSeq: Required input for 3' bias correction on transcripts.
Transcription RNASeq safe BitSeq Transcription RNASeq safe BitSeq
12.2 years ago Peter Glaus ▴ 70
0
votes
1
reply
1.9k
views
promoter prediction
Transcription MotIV MotifDb Transcription MotIV MotifDb
updated 12.5 years ago by ▴ 380 • written 12.5 years ago by ▴ 750
0
votes
0
replies
4.5k
views
ComBat
Transcription Genetics Pathways Network Survival Cancer Breast Colon Kidney Leukemia HIV
12.5 years ago SSc Array Core ▴ 10
0
votes
0
replies
3.4k
views
Bioconductor 2.11 is released
BiocViews SNP Transcription Sequencing miRNA Microbiome Microarray qPCR Genetics Coverage
12.6 years ago Dan Tenenbaum ★ 8.2k
1
vote
5
replies
2.5k
views
paCalls oligo package
Transcription oligo Transcription oligo
updated 12.6 years ago by 68k • written 12.6 years ago by ▴ 190
0
votes
1
reply
2.1k
views
Bioconductor Digest, Vol 115, Issue 22
Transcription Sequencing miRNA SmallRNA Annotation Normalization GO Cancer Organism edgeR
updated 12.6 years ago by ★ 13k • written 12.6 years ago by ▴ 10
0
votes
0
replies
1.5k
views
NGS public data analysis
Transcription DEGseq Transcription DEGseq
12.6 years ago Jill Pleasance ▴ 10
0
votes
1
reply
1.7k
views
Differential expression analysis of CAGE data
Transcription Annotation convert edgeR DESeq Transcription Annotation convert edgeR DESeq
updated 12.6 years ago by ★ 13k • written 12.6 years ago by ▴ 30
0
votes
0
replies
1.1k
views
ChIPpeakAnno - c elegans annotation feature type: translation start site
Transcription Transcription
12.7 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
5.2k
views
GRanges DitancetoNearest query
Transcription GenomicRanges Transcription GenomicRanges
updated 12.7 years ago by ★ 13k • written 12.7 years ago by ▴ 150
0
votes
0
replies
1.1k
views
GOstats adding custom annotations
Transcription miRNA GO Transcription miRNA GO
12.8 years ago sudeep s ▴ 60
0
votes
2
replies
2.0k
views
goTools: Error in goidvect[test] : invalid subscript type \'list\'
Transcription Microarray Annotation GO goTools Transcription Microarray Annotation GO
updated 12.8 years ago by 68k • written 12.8 years ago by ★ 13k
0
votes
4
replies
1.7k
views
AffyID mapping question
Transcription mouse4302 Transcription mouse4302
updated 12.8 years ago by ★ 7.2k • written 12.8 years ago by ★ 13k
0
votes
11
replies
3.1k
views
"graphite" Biocarta 'native' graphs different from Biocarta web site?
Transcription Pathways Leukemia graphite Transcription Pathways Leukemia graphite
12.9 years ago Hamid Bolouri ▴ 90
0
votes
5
replies
1.8k
views
predicting transcription factors
Transcription Transcription
updated 12.9 years ago by ▴ 750 • written 12.9 years ago by ▴ 380
0
votes
0
replies
1.4k
views
Biological Pathway Database
Transcription Pathways Category Transcription Pathways Category
13.0 years ago Gita Singh ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Cannot extract size factor from DESeq2 analysis by s.malik • 0
Dear Mike, using tximeta and following code, is this fine to extract normalized counts after `sizeFactors(dds)` gives NULL? `dds <- DESeq…
Comment: Design formula for circadian time-course data for vst() function by Vishnu • 0
Thank you so much for your reply.
Comment: Analyzing TnSeq data with DESeq2 by Tom • 0
[Doncaster Locksmith][1] delivers trusted, efficient security services tailored to your needs. Analyzing TnSeq data with DESeq2 may uncover…
Answer: Design formula for circadian time-course data for vst() function by ATpoint ★ 4.8k
This was asked before: https://support.bioconductor.org/p/9148734/#9148812 Take-home message is that influence is minor, as you see your…
Comment: Filtering after DESeq by caroline.zanchi • 0
... I did it. It does filter out quite a bit of genes : ``` keep <- filterByExpr(dds, group="host_treatment_generation",min.count = 10, mi…
Votes
A: DESeq2::sizeFactors() function does not output the sizeFactor table.
Comment: Filtering after DESeq
A: Normalized counts from DESeq2 results in similar but not equal total read count?
A: DESeq2: Different Dispersions for different sample groups
A: Contrasts & coefficients in limma
Awards • All
Great Question to inzirio ▴ 10
Popular Question to enee ▴ 10
Popular Question to Sam ▴ 10
Popular Question to s.malik • 0
Popular Question to shepherl 4.1k
Locations • All
United States, 12 minutes ago
United Kingdom, 43 minutes ago
United States, 49 minutes ago
Italy, 1 hour ago
UPF, Barcelona, Spain, 1 hour ago
Traffic: 666 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6