Bioconductor SRA

Showing : SRA • reset

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1.4k

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SRA DESeq2

4.0 years ago Serge • 0

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1.2k

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RNA-seq SRA reverse reads forward reads

6.9 years ago modarzi ▴ 10

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1.7k

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R fastq SRA sradb

updated 8.5 years ago by Martin Morgan 25k • written 8.5 years ago by grecoandreauni • 0

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4.3k

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sra chipseqDB fastq-dump .lite.sra

updated 8.6 years ago by James W. MacDonald 68k • written 8.6 years ago by xhe764 • 0

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1.7k

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ncbi sra search

9.3 years ago massacomgrao • 0

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4.3k

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rnaseq biocparallel workflows sra Tutorial

9.9 years ago Sean Davis 21k

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Comment: Can't install BioC packages (and manager) behind firewall by Marcel Ramos 700

Hi Delphine, Please make sure that your SSL certificates are up to date. Check with your system's administrator. Your browser may be usin…

Comment: Limma trend with limpa by Alejandro • 0

Dear Gordon, Thank you very much!

Answer: DESeq2 from phyloseq error by asafpr • 0

Apparently, I left this line: ```r setClassUnion("ExpData", c("matrix", "SummarizedExperiment")) ``` to patch the ExpData issue which was …

Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0

Thank you for your reply! There are some pretty big discrepancies in the total raw counts between samples: ![enter image description here…

Answer: Limma trend with limpa by Gordon Smyth 52k

Dear Alejandro, Thanks for your interest. No, one does not set `trend=TRUE` when running eBayes() after dpcDE(). The variance trends are …

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Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

A: what should I do with many zero counts from Salmon quantification

Comment: parameters of filterByExpr

GAlignments Cigar to GRanges

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