Bioconductor SpliceMap

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QuasR rnaseq alignment splicemap bowtie2

9.7 years ago Gabriella • 0

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SpliceMap QuasR RNAseq Alignment

updated 9.8 years ago by Hotz, Hans-Rudolf ▴ 400 • written 9.9 years ago by tarek.mohamed ▴ 10

2 results • Page 1 of 1

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Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0

Thank you very much! will take that into consideration

Votes

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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