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shrna
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2
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1.6k
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Using edgeR for small shRNA-seq screen analysis
edger
shrna
7.6 years ago
sirintra
▴ 10
2
votes
2
replies
2.0k
views
Analysis of shRNA screen data
shrna
edger
deseq2
differential expression
normalized counts
8.2 years ago
Jane Merlevede
▴ 90
1
vote
1
reply
1.1k
views
limma for shRNA dropout screen analysis?
limma
gmap
shRNA
dropout screen
updated 8.3 years ago by
Aaron Lun
★ 28k • written 8.3 years ago by
Anna Dvorkin
▴ 40
4
votes
4
replies
1.7k
views
edgeR:processAmplicons barcode match only 57% when it should be 100% -- I artificially inserted them -- are there other assumptions
edgeR
processamplicons
shrna
updated 8.8 years ago by
thomas.leete
• 0 • written 9.0 years ago by
Anne Deslattes Mays
▴ 10
0
votes
5
replies
2.9k
views
example fastq file, sampleAnnotaition and Hairpin file for shRNAseq/EdgeR tool
shRNAseq
edgeR
shRNA
updated 9.0 years ago by
Gordon Smyth
51k • written 9.0 years ago by
KB
▴ 50
5 results • Page
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Comment: How should I run ssGSEA Hallmark Enrichment Analysis?
by
Ginny
• 0
I think the other side of this question is that the non protein coding genes would be in the "background", they would influence the ranking…
Comment: ISO a solution to rank-order introns by transcript
by
James W. MacDonald
67k
There's an error in the last line. Note that `sapply(lengths(z), seq_len)` will return a `list` because the lengths vary. We need a vector,…
Comment: BiomaRt - improved access to Ensembl ?
by
Mike Smith
★ 6.5k
Why do you want to use `useMart()` rather than `useEnsembl()`? They are essentially the same (`useEnsembl()` will eventually call `useMart(…
Comment: Installing Bioconductor packages in Docker
by
devarti.mahakalkar
• 0
I have installed BiocManager on my base image rather than having it as base image. RUN Rscript -e "install.packages('BiocManager', re…
Comment: Meta-analysis on RNA-seq data sets
by
Travis
• 0
Thank you for your suggestions and explanation of your approach!
Votes
Answer: ISO a solution to rank-order introns by transcript
Answer: ISO a solution to rank-order introns by transcript
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: addPatternDensity in 'qsea' takes too much time
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Robert Castelo
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