Showing : recount • reset
2
votes
6
replies
1.3k
views
Unable to load data from duffel.rail
recount recountWorkflow recount3
updated 12 months ago by ★ 1.0k • written 17 months ago by • 0
4
votes
7
replies
1.6k
views
recount TCGA data one gene_id mapped to multiple symbols and vice versa
recount
updated 4.5 years ago by ★ 1.0k • written 4.5 years ago by ▴ 20
0
votes
2
replies
1.1k
views
Recount2 TCGA metadata missing sample, run and experiment columns
recount metadata tcga
updated 6.2 years ago by • 0 • written 6.2 years ago by • 0
0
votes
2
replies
798
views
Recount3 data download problem
recount recount3
updated 12 months ago by ★ 1.0k • written 16 months ago by • 0
3
votes
3
replies
1.3k
views
Recount data for unannotated genes
recount RNAseq gencode lncRNA gene annotation
updated 5.0 years ago by ▴ 70 • written 5.1 years ago by ▴ 20
0
votes
2
replies
689
views
Cannot download data from IDIES links
recount recountWorkflow recount3
updated 12 months ago by ★ 1.0k • written 16 months ago by • 0
0
votes
4
replies
1.3k
views
Inconsistent geo_char for rse_tx
bug recount
5.3 years ago • updated 4.5 years ago Jacques.van-Helden • 0
0
votes
1
reply
1.9k
views
Recount TCGA data
recount
updated 6.6 years ago by ★ 1.0k • written 6.6 years ago by • 0
1
vote
4
replies
3.8k
views
NA values of count matrix in class DESeqDataSet
rna-seq recount
updated 3.0 years ago by ★ 1.0k • written 6.6 years ago by • 0
0
votes
1
reply
1.2k
views
Getting pheno tables from recount datasets without any NA values in characteristics and geo_accession fields and also without duplicated row.names
recount summarizedexperiment
updated 6.5 years ago by ★ 1.0k • written 6.5 years ago by • 0
3
votes
3
replies
1.7k
views
derfinder: how to merge regions and counts from individual chromosomes
derfinder recount
updated 6.4 years ago by ★ 1.0k • written 6.4 years ago by ▴ 510
0
votes
3
replies
1.2k
views
According to Recount2 metadata and Recount2 website, SRP000941 has 345 samples, but after downloading the study the rse_gene object only has 343 samp…
recount
updated 6.1 years ago by ★ 1.0k • written 6.1 years ago by • 0
0
votes
1
reply
1.0k
views
What does scaling RNASeq data using the area under coverage information (AUC) mean ? - related to recount package
library size factor recount
updated 5.6 years ago by ★ 1.0k • written 5.7 years ago by • 0
0
votes
1
reply
3.3k
views
Is GTEx age and sex data available via the recount package?
recount gtex
updated 5.5 years ago by ★ 1.0k • written 5.5 years ago by • 0
3
votes
4
replies
1.4k
views
What assays are distributed with Recount TX data
recount recount2 RangedSummarizedExperiment
updated 4.7 years ago by ★ 1.0k • written 5.5 years ago by ▴ 120
1
vote
1
reply
955
views
Number of reads from recount are greater than target library size (40 million) for TCGA and GTEx projects
recount
updated 5.1 years ago by ★ 1.0k • written 5.1 years ago by ▴ 20
0
votes
3
replies
1.9k
views
Problem constructing DESeq objects with large integers.
deseq2 recount
5.0 years ago Zach Brehm • 0
1
vote
5
replies
1.5k
views
scale_counts targetSize normalization for recount2 counts
recount
updated 4.9 years ago by ★ 1.0k • written 4.9 years ago by • 0
1
vote
6
replies
1.6k
views
how to download bigwig from recount2?
recount
updated 4.7 years ago by 25k • written 4.7 years ago by • 0
0
votes
2
replies
1.7k
views
Obtaining recount project data in TPM?
recount
updated 4.7 years ago by ★ 1.0k • written 4.7 years ago by • 0
0
votes
1
reply
742
views
recount: inconsistency between pheno table structure for gene and transcript datasets
software error recount
updated 4.4 years ago by ★ 1.0k • written 4.4 years ago by • 0
0
votes
2
replies
1.4k
views
Recount2 Bigwigs for TCGA
R TCGA recount2 recount
updated 4.1 years ago by ★ 1.0k • written 4.2 years ago by • 0
0
votes
1
reply
1.2k
views
Using recount data to calculate Intron retention
snapcount recount3 recount
updated 3.1 years ago by ★ 1.0k • written 3.1 years ago by • 0
1
vote
1
reply
1.1k
views
recount3 - download bigwig files for TCGA data
recount3 recount TCGA
updated 2.1 years ago by ★ 1.0k • written 2.1 years ago by ▴ 10
1
vote
1
reply
214
views
Transcript level expression for CCLE
recount3 recount CCLE
updated 3 months ago by ★ 1.0k • written 3 months ago by ▴ 510
0
votes
14
replies
3.2k
views
Error through importing (project = 'SRP009615') or even to download any BigWig File
recount Tutorial
updated 7.2 years ago by ★ 1.0k • written 7.2 years ago by • 0
2
votes
4
replies
2.1k
views
TCGA - Different Sample Number
recount
updated 7.2 years ago by ▴ 20 • written 7.2 years ago by • 0
2
votes
1
reply
1.3k
views
recount not available
recount
updated 7.0 years ago by 25k • written 7.0 years ago by ★ 1.0k
3
votes
10
replies
2.0k
views
recount counts in the example experiment
recount
updated 7.0 years ago by ★ 1.0k • written 7.0 years ago by 41k
2
votes
2
replies
1.4k
views
Number of IRanges elements in TCGA HiSeqV2 dataset
r tcga recount iranges
updated 6.9 years ago by ★ 1.0k • written 6.9 years ago by ▴ 20
0
votes
5
replies
1.9k
views
Matching columns to sample names
recount
updated 6.7 years ago by ★ 1.0k • written 6.7 years ago by • 0
2
votes
1
reply
473
views
Zero counts for all samples for all genes downloaded from recount3
recount
updated 8 months ago by ★ 4.1k • written 8 months ago by ▴ 10
1
vote
3
replies
1.0k
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2 recount GTEx TCGA recount3
updated 12 months ago by ★ 4.1k • written 12 months ago by ▴ 20
1
vote
4
replies
3.0k
views
The recount package is not available for R version 3.3.1
recount
7.7 years ago arjunkrish • 0
0
votes
1
reply
3.0k
views
NA values of count matrix in class DESeqDataSet
rnaseq recount
6.6 years ago maleknias • 0
0
votes
1
reply
718
views
recount
recount
updated 24 months ago by • 0 • written 24 months ago by • 0
0
votes
1
reply
792
views
How to identify all SRPs with GTEx bigwig files?
recount
4.7 years ago hyp15 • 0
0
votes
0
replies
174
views
Recount3 error downloading data
recount3 recount
12 weeks ago Max Bone • 0
38 results • Page 1 of 1
Recent ...
Replies
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70
Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …
Comment: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq by james.zhang20 • 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Answer: Deseq2 and Normalization of RNA sequencing data by ATpoint ★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
Awards • All
Popular Question to rohitsatyam102 ▴ 20
Popular Question to shepherl 3.8k
Popular Question to siajunren • 0
Scholar to Rory Stark ★ 5.2k
Popular Question to tangming2005 ▴ 190
Locations • All
Germany, just now
India, 1 minute ago
France, 7 minutes ago
United States, 7 minutes ago
United States, 8 minutes ago
Traffic: 884 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6