Showing : recount • reset
0
votes
0
replies
191
views
Recount3 error downloading data
recount3 recount
3 months ago Max Bone • 0
1
vote
1
reply
246
views
Transcript level expression for CCLE
recount3 recount CCLE
updated 3 months ago by ★ 1.0k • written 3 months ago by ▴ 510
2
votes
1
reply
482
views
Zero counts for all samples for all genes downloaded from recount3
recount
updated 9 months ago by ★ 4.1k • written 9 months ago by ▴ 10
0
votes
2
replies
829
views
Recount3 data download problem
recount recount3
updated 12 months ago by ★ 1.0k • written 17 months ago by • 0
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
0
votes
2
replies
714
views
Cannot download data from IDIES links
recount recountWorkflow recount3
updated 12 months ago by ★ 1.0k • written 16 months ago by • 0
1
vote
3
replies
1.1k
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
0
votes
1
reply
731
views
recount
recount
updated 2.0 years ago by • 0 • written 2.0 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
4
replies
3.8k
views
NA values of count matrix in class DESeqDataSet
rna-seq recount
updated 3.1 years ago by ★ 1.0k • written 6.6 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
0
votes
2
replies
1.5k
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
750
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
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
4
replies
1.4k
views
Inconsistent geo_char for rse_tx
bug recount
5.4 years ago • updated 4.6 years ago Jacques.van-Helden • 0
0
votes
1
reply
796
views
How to identify all SRPs with GTEx bigwig files?
recount
4.7 years ago hyp15 • 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
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
6
replies
1.6k
views
how to download bigwig from recount2?
recount
updated 4.8 years ago by 25k • written 4.8 years ago by • 0
1
vote
5
replies
1.6k
views
scale_counts targetSize normalization for recount2 counts
recount
updated 4.9 years ago by ★ 1.0k • written 4.9 years ago by • 0
0
votes
3
replies
1.9k
views
Problem constructing DESeq objects with large integers.
deseq2 recount
5.0 years ago Zach Brehm • 0
3
votes
3
replies
1.3k
views
Recount data for unannotated genes
recount RNAseq gencode lncRNA gene annotation
updated 5.1 years ago by ▴ 70 • written 5.1 years ago by ▴ 20
1
vote
1
reply
963
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
1
reply
3.4k
views
Is GTEx age and sex data available via the recount package?
recount gtex
updated 5.6 years ago by ★ 1.0k • written 5.6 years ago by • 0
0
votes
1
reply
1.1k
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
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 6.2 years ago by ★ 1.0k • written 6.2 years ago by • 0
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
3
votes
3
replies
1.7k
views
derfinder: how to merge regions and counts from individual chromosomes
derfinder recount
updated 6.5 years ago by ★ 1.0k • written 6.5 years ago by ▴ 510
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
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
2.0k
views
Recount TCGA data
recount
updated 6.7 years ago by ★ 1.0k • written 6.7 years ago by • 0
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
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
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 42k
2
votes
1
reply
1.3k
views
recount not available
recount
updated 7.1 years ago by 25k • written 7.1 years ago by ★ 1.0k
2
votes
4
replies
2.2k
views
TCGA - Different Sample Number
recount
updated 7.2 years ago by ▴ 20 • written 7.2 years ago by • 0
0
votes
14
replies
3.3k
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
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
38 results • Page 1 of 1
Recent ...
Replies
Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0
Thanks a lot!
Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150
Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa by Matthew Thornton ▴ 360
So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
Votes
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?
Awards • All
Popular Question to Chris ▴ 10
Popular Question to Guido Hooiveld ★ 4.0k
Scholar to Michael Love 42k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to boczniak767 ▴ 720
Locations • All
India, 1 minute ago
Melbourne, Australia, 11 minutes ago
Singapore, 26 minutes ago
Hong Kong, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
Traffic: 353 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