Showing : recount • reset
1
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4
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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
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
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
0
votes
1
reply
3.0k
views
NA values of count matrix in class DESeqDataSet
rnaseq recount
6.6 years ago maleknias • 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
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
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
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
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
1.7k
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
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
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
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
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
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
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
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
4
replies
1.3k
views
Inconsistent geo_char for rse_tx
bug recount
5.3 years ago • updated 4.6 years ago Jacques.van-Helden • 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
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
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
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
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
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
1.1k
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
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
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
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
1
reply
958
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
2
replies
814
views
Recount3 data download problem
recount recount3
updated 12 months ago by ★ 1.0k • written 17 months ago by • 0
0
votes
1
reply
794
views
How to identify all SRPs with GTEx bigwig files?
recount
4.7 years ago hyp15 • 0
0
votes
1
reply
746
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
1
reply
724
views
recount
recount
updated 2.0 years ago by • 0 • written 2.0 years ago by • 0
0
votes
2
replies
700
views
Cannot download data from IDIES links
recount recountWorkflow recount3
updated 12 months ago by ★ 1.0k • written 16 months ago by • 0
2
votes
1
reply
475
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
1
vote
1
reply
223
views
Transcript level expression for CCLE
recount3 recount CCLE
updated 3 months ago by ★ 1.0k • written 3 months ago by ▴ 510
0
votes
0
replies
183
views
Recount3 error downloading data
recount3 recount
3 months ago Max Bone • 0
38 results • Page 1 of 1
Recent ...
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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
That ll be helpful. Thank you.
Comment: Log-cpm values from limma by Shaimaa Gamal • 0
I have performed RUVg correction and extracted W, factors of unwanted variation. According to limma guide, > In the limma approach to RNA…
Comment: DSS CpG coverage threshold by j.gilbert • 0
Might be a bit late for the original poster :') but in case anyone else is wondering, the DSS user guide says: *Q: Do I need to filter out…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Segmentation is of the whole genome, I'll write some code for doing this later today.
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
I'll take a look later. For next time, I've edited your post by enclosing the code in triple backticks (on their own link). This properly …
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Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
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