Showing : shrna • reset
0
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2
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Using edgeR for small shRNA-seq screen analysis
edger shrna
8.7 years ago sirintra ▴ 10
2
votes
2
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2.4k
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Analysis of shRNA screen data
shrna edger deseq2 differential expression normalized counts
9.3 years ago Jane Merlevede ▴ 90
1
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1
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1.3k
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limma for shRNA dropout screen analysis?
limma gmap shRNA dropout screen
updated 9.5 years ago by ★ 29k • written 9.5 years ago by ▴ 40
4
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4
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2.1k
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edgeR:processAmplicons barcode match only 57% when it should be 100% -- I artificially inserted them -- are there other assumptions
edgeR processamplicons shrna
updated 10.0 years ago by • 0 • written 10.1 years ago by ▴ 10
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5
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3.2k
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example fastq file, sampleAnnotaition and Hairpin file for shRNAseq/EdgeR tool
shRNAseq edgeR shRNA
updated 10.2 years ago by 53k • written 10.2 years ago by ▴ 50
5 results • Page 1 of 1
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Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much, @ATpoint and @kevin , for your valuable insights. I have carefully checked all your suggestions. First, I examined th…
Answer: Finding duplicated entries in GRangesList by Kevin Blighe ★ 4.0k
The duplicated and unique functions operate element-wise on GRangesList objects. This means that they apply the respective function to each…
Answer: DESeq2 on non-RNASeq counts data by Kevin Blighe ★ 4.0k
The use of DESeq2 for count data from artificial sequences is acceptable, as the program models counts via a negative binomial distribution…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hello Rui Tang, The buffer overflow error in featureCounts that you encountered is likely due to a compatibility issue between the Subre…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
The issue that you describe with the tumor mutational burden (TMB) plots appearing linear and lacking consistent TMB values across samples …
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Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Identifying differentially expressed genes in individual samples from a large co
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