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STAR
•
reset
4
votes
7
replies
2.2k
views
RNAseq reads mapped to the gene
star
featurecounts
edgeR
RNAseq
8.0 years ago
myprogramming2016
• 0
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 5.3 years ago by
Gordon Smyth
50k • written 5.3 years ago by
Gary
▴ 20
2
votes
2
replies
1.2k
views
Why does total unique map not equal to library size?
htseqcounts
star
rnaseq
6.7 years ago
Ahdee
▴ 50
2
votes
3
replies
1.3k
views
Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DESeq2 using tximport
STAR
tximport
RNASeq
DESeq2
updated 5 months ago by
swbarnes2
★ 1.4k • written 5 months ago by
Bo
• 0
2
votes
2
replies
7.4k
views
RNA STAR to DESeq2
deseq2
count matrix
star
updated 6.8 years ago by
James W. MacDonald
66k • written 6.8 years ago by
nikelle.petrillo
• 0
1
vote
3
replies
1.6k
views
tximeta on STAR-aligned Salmon-quantified output
tximeta
salmon
STAR
updated 4.0 years ago by
Michael Love
42k • written 4.0 years ago by
josephbrown
▴ 10
1
vote
5
replies
2.3k
views
Single end STAR Chimeric.out.junction fails to read with chimera::importFusionData
chimera
STAR
updated 9.3 years ago by
rcaloger
▴ 500 • written 9.3 years ago by
wresch
• 0
1
vote
7
replies
5.4k
views
featureCounts creating fragments and high NoFeatures value
featurecounts
bioconductor
differential gene expression
star
updated 7.3 years ago by
Wei Shi
★ 3.6k • written 7.3 years ago by
gregory.l.stone
▴ 10
1
vote
2
replies
1.5k
views
Gviz off-by-one with STAR BAM
gviz
off-by-one
STAR
BAM
coverage
updated 7.2 years ago by
Martin Morgan
25k • written 7.2 years ago by
bernt.popp
• 0
0
votes
10
replies
4.8k
views
Differential expression analysis for STAR-aligned RNA-Seq data
deseq2
rnaseq
STAR
updated 7.8 years ago by
Michael Love
42k • written 7.8 years ago by
sum31278
• 0
0
votes
2
replies
1.1k
views
BAM file into R from Illumina
bam file
STAR
Illumina
updated 6.1 years ago by
ta_awwad
▴ 10 • written 6.1 years ago by
soheilazareie
• 0
0
votes
2
replies
3.0k
views
lncRNA annotation for featureCouns and STAR
lncRNA
featureCounts
STAR
annotation
updated 6.0 years ago by
Wei Shi
★ 3.6k • written 6.0 years ago by
inah
▴ 10
0
votes
3
replies
3.3k
views
Handling pseudogenes in RNA-seq
rna-seq
pseudogenes
STAR
counts
updated 5.9 years ago by
Levi Waldron
★ 1.1k • written 5.9 years ago by
supremerulersuraj
• 0
0
votes
1
reply
923
views
weired output with featurecount
featurecounts
star
5.7 years ago
roghaiyeh.safari
• 0
0
votes
0
replies
1.2k
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
0
votes
1
reply
906
views
Using STAR and DESeq2 for circRNA analysis
STAR
deseq2
updated 5.2 years ago by
Michael Love
42k • written 5.2 years ago by
csijst
• 0
0
votes
1
reply
1.8k
views
using tximport with STAR transcript-quantification output
tximport
deseq2
STAR
updated 4.6 years ago by
Michael Love
42k • written 4.6 years ago by
mohamedrefaat.1.1992
• 0
0
votes
1
reply
2.0k
views
FeatureCounts: Low assigned reads, can I proceed? Do I need to do another pre-processing step?
LowAssignedReads
STAR
featureCounts
updated 17 months ago by
swbarnes2
★ 1.4k • written 17 months ago by
lalala
• 0
0
votes
1
reply
602
views
Help for RNA sequencing analysis with DESEQ2
DESeq2
star
differentiallyexpressed
updated 16 months ago by
Michael Love
42k • written 16 months ago by
nico
• 0
0
votes
5
replies
2.9k
views
Problem Importing STAR fusion data into chimera
fusion genes
chimera
star
updated 9.2 years ago by
richa_r
• 0 • written 9.5 years ago by
am26
• 0
20 results • Page
1 of 1
Recent ...
Replies
Comment: recount3 problem downloading data from source sra
by
PABLO ANTONIO
• 0
Hello Leonardo, Thanks for commenting on possible solutions. I noticed comparing your session info that I was using the previous version o…
Comment: seqlevelsStyle() not working
by
websterdelacruz2087055
• 0
Specify the new URL new_url <- "https://hgdownload2.cse.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz" Use the new URL to download th…
Comment: SGSeq: moving toward diffex from SGSeq analysis
by
Sara
• 0
Yes, thank you. I have another error now, may you please guide me. here is the code that I used till using vep: ```r # bam_path <- "~/pat…
Comment: slingshot: error with plot3d.SlingshotDataSet
by
Happiness
• 0
Hi please i am encountering similar issue how did you fix it. Here is the code: ## Run Slingshot p3.neuron.sds <- slingshot(Embeddings(…
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
by
mohammedtoufiq91
▴ 10
https://support.bioconductor.org/u/5106/ thank you very much.
Votes
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
Comment: Ensembl plants at annotationHub?
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
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