Showing : STAR • reset
0
votes
10
replies
4.7k
views
Differential expression analysis for STAR-aligned RNA-Seq data
deseq2 rnaseq STAR
updated 7.7 years ago by 41k • written 7.7 years ago by • 0
1
vote
7
replies
5.3k
views
featureCounts creating fragments and high NoFeatures value
featurecounts bioconductor differential gene expression star
updated 7.2 years ago by ★ 3.6k • written 7.2 years ago by ▴ 10
4
votes
7
replies
2.1k
views
RNAseq reads mapped to the gene
star featurecounts edgeR RNAseq
7.9 years ago myprogramming2016 • 0
0
votes
5
replies
2.8k
views
Problem Importing STAR fusion data into chimera
fusion genes chimera star
updated 9.1 years ago by • 0 • written 9.5 years ago by • 0
1
vote
5
replies
2.2k
views
Single end STAR Chimeric.out.junction fails to read with chimera::importFusionData
chimera STAR
updated 9.2 years ago by ▴ 500 • written 9.3 years ago by • 0
1
vote
3
replies
1.5k
views
tximeta on STAR-aligned Salmon-quantified output
tximeta salmon STAR
updated 4.0 years ago by 41k • written 4.0 years ago by ▴ 10
0
votes
3
replies
3.3k
views
Handling pseudogenes in RNA-seq
rna-seq pseudogenes STAR counts
updated 5.9 years ago by ★ 1.1k • written 5.9 years ago by • 0
2
votes
3
replies
1.1k
views
Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DESeq2 using tximport
STAR tximport RNASeq DESeq2
updated 4 months ago by ★ 1.3k • written 4 months ago by • 0
1
vote
2
replies
1.5k
views
Gviz off-by-one with STAR BAM
gviz off-by-one STAR BAM coverage
updated 7.1 years ago by 25k • written 7.1 years ago by • 0
2
votes
2
replies
1.1k
views
Why does total unique map not equal to library size?
htseqcounts star rnaseq
6.6 years ago Ahdee ▴ 50
0
votes
2
replies
1.1k
views
BAM file into R from Illumina
bam file STAR Illumina
updated 6.0 years ago by ▴ 10 • written 6.0 years ago by • 0
0
votes
2
replies
2.9k
views
lncRNA annotation for featureCouns and STAR
lncRNA featureCounts STAR annotation
updated 5.9 years ago by ★ 3.6k • written 5.9 years ago by ▴ 10
3
votes
2
replies
2.1k
views
The optimal minMQS parameter in featureCounts for RNA-Seq quantification
RNA-Seq featureCounts STAR minMQS mapping quality score
updated 5.2 years ago by 50k • written 5.2 years ago by ▴ 20
2
votes
2
replies
7.3k
views
RNA STAR to DESeq2
deseq2 count matrix star
updated 6.7 years ago by 65k • written 6.7 years ago by • 0
0
votes
1
reply
889
views
Using STAR and DESeq2 for circRNA analysis
STAR deseq2
updated 5.2 years ago by 41k • written 5.2 years ago by • 0
0
votes
1
reply
1.7k
views
using tximport with STAR transcript-quantification output
tximport deseq2 STAR
updated 4.5 years ago by 41k • written 4.5 years ago by • 0
0
votes
1
reply
1.9k
views
FeatureCounts: Low assigned reads, can I proceed? Do I need to do another pre-processing step?
LowAssignedReads STAR featureCounts
updated 16 months ago by ★ 1.3k • written 16 months ago by • 0
0
votes
1
reply
578
views
Help for RNA sequencing analysis with DESEQ2
DESeq2 star differentiallyexpressed
updated 15 months ago by 41k • written 15 months ago by • 0
0
votes
1
reply
904
views
weired output with featurecount
featurecounts star
5.6 years ago roghaiyeh.safari • 0
0
votes
0
replies
1.1k
views
STAR_how many mismatches to allow if the read length is 100 bp in RNA-seq data
star
8.4 years ago tg369 ▴ 10
20 results • Page 1 of 1
Recent ...
Replies
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre
Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k
Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…
Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Votes
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
Awards • All
Scholar to James W. MacDonald 65k
Supporter to JKim • 0
Popular Question to Gordon Smyth 50k
Popular Question to Chris • 0
Supporter to Jonathan ▴ 10
Locations • All
United States, just now
United States, just now
Canada, 1 minute ago
France/Marseille/Inserm, 9 minutes ago
France, 17 minutes ago
Traffic: 995 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