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sra
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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
votes
0
replies
462
views
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
votes
1
reply
740
views
Uniting SRA Data into a single file
R
fastq
SRA
sradb
updated 5.5 years ago by
Martin Morgan
25k • written 5.5 years ago by
grecoandreauni
• 0
0
votes
3
replies
1.5k
views
download SRR*.lite.sra files using fastq-dump command
sra
chipseqDB
fastq-dump
.lite.sra
updated 5.7 years ago by
James W. MacDonald
59k • written 5.7 years ago by
xhe764
• 0
0
votes
0
replies
934
views
Search SRA based on BioSample Attributes
ncbi
sra
search
6.3 years ago
massacomgrao
• 0
6
votes
1
reply
3.0k
views
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
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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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