Showing : sra • reset
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Creating a DESeqDataSet from a RangedSummarizedExperiment - where is the design parameter in RangedSummarizedExperiment
SRA DESeq2
11 months ago Serge • 0
0
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0
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462
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Problem for Splitting reverse and forward reading in my RNA-seq
RNA-seq SRA reverse reads forward reads
3.9 years ago modarzi ▴ 10
2
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1
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740
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Uniting SRA Data into a single file
R fastq SRA sradb
updated 5.5 years ago by 25k • written 5.5 years ago by • 0
0
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3
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1.5k
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download SRR*.lite.sra files using fastq-dump command
sra chipseqDB fastq-dump .lite.sra
updated 5.7 years ago by 59k • written 5.7 years ago by • 0
0
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934
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Search SRA based on BioSample Attributes
ncbi sra search
6.3 years ago massacomgrao • 0
6
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1
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3.0k
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Tutorial: Orchestrating a small, parallel, RNA-seq pre-processing workflow using R
rnaseq biocparallel workflows sra Tutorial
6.9 years ago Sean Davis 21k
6 results • Page 1 of 1
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Comment: error with: .make_splicings <- function(exons, cds, stop_codons=NULL) by James W. MacDonald 59k
It's not clear from this what the problem is. Rather than running under `snakemake` you might run the R code directly. I mean it's obvious …
Comment: CPM after RUVseq by James W. MacDonald 59k
I am unfamiliar with a `counts` function (your `counts(set)`), so it's not clear what exactly you are putting into that `DGEList`. But if i…
Comment: error with: .make_splicings <- function(exons, cds, stop_codons=NULL) by rsnorman • 0
Thanks for the advice! I need to use this particular bacterial strain, but I did locate a more recent annotation for it and that cleared th…
Comment: Error in h(simpleError(msg, call)) : when calling makeOrgPackagefromNCBI() by shepherl 3.1k
I'm not able to reproduce this. Maybe it was a temporary issue with biomaRt? ``` > makeOrgPackageFromNCBI( + version = "0.1", + …
Comment: CPM after RUVseq by Jess • 0
Ah I think I know where the communication breakdown is occurring. When I think of RUVr, I'm including fitting the preliminary model in edge…
Votes
A: Using the plotting functions of clusterProfiler / enrichplot with enrichment res
Answer: CPM after RUVseq
Comment: Merging two plated in R
Answer: Merging two plated in R
Answer: Merging two plated in R
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