Showing : easyrnaseq • reset
1
vote
2
replies
2.8k
views
mgcv not updating
mgcv easyRNASeq
updated 3.8 years ago by 25k • written 3.8 years ago by ▴ 10
0
votes
3
replies
1.4k
views
simpleRNASeq easyRNAseq warnings edgeR error
simplernaseq easyrnaseq edger DEformats
updated 6.8 years ago by ▴ 320 • written 6.9 years ago by • 0
4
votes
5
replies
1.7k
views
Warning: missing reverse strand option in easyRNASeq.
easyrnaseq rnaseq strand
updated 7.5 years ago by 16k • written 7.5 years ago by ▴ 10
0
votes
1
reply
1.6k
views
simpleRNASeq stopped running (related to S4 vectors?)
simplernaseq easyrnaseq s4vectors
updated 9.0 years ago by ▴ 320 • written 9.0 years ago by • 0
0
votes
2
replies
1.8k
views
Package installation errors for Bioconductor and easyRNASeq
installation biocinstaller easyrnaseq
updated 9.0 years ago by 25k • written 9.0 years ago by • 0
2
votes
2
replies
1.6k
views
Error reading BAM file with duplicated header in easyRNAseq and GenomicAlignments
software error easyrnaseq genomicalignments bam
updated 9.2 years ago by 25k • written 9.2 years ago by ▴ 10
0
votes
5
replies
2.5k
views
easyRNAseq annotation file
easyrnaseq annotation
9.3 years ago kylvalda • 0
0
votes
17
replies
3.2k
views
Issue with easyRNASeq
easyRNASeq error
9.5 years ago ea11g0 • 0
1
vote
13
replies
3.4k
views
Several issues with the package easyRNASeq
easyrnaseq bug
9.5 years ago Michael Dondrup ▴ 10
0
votes
2
replies
1.4k
views
simpleRNASeq error importing BAM files
simpleRNASeq easyRNASeq
updated 9.5 years ago by 67k • written 9.5 years ago by • 0
0
votes
6
replies
1.9k
views
easyRNASeq: "Error in IRangesList"
easyRNASeq
9.5 years ago surjray • 0
0
votes
5
replies
2.8k
views
count tables created with easyRNASeq and the rpkm() function from edgeR
easyrnaseq edger rpkm
updated 9.8 years ago by ▴ 320 • written 9.8 years ago by ▴ 80
2
votes
6
replies
2.2k
views
easyRNAseq says Your annotation is not in sync with your alignments!
easyRNAseq
updated 9.9 years ago by ▴ 320 • written 9.9 years ago by • 0
0
votes
1
reply
3.4k
views
easyRNASeq error: Error in aggregate.data.frame(as.data.frame(x), ...) : no rows to aggregate
easyrnaseq
10.1 years ago sylvian • 0
1
vote
5
replies
2.3k
views
Getting a count matrix from a SummerizedExpriment with EasyRNASeq
easyrnaseq
10.2 years ago Sylvain Foisy ▴ 80
0
votes
1
reply
1.3k
views
Devel version of easyRNASeq: using the simpleRNASeq method gives an error
easyRNASeq easyRNASeq
updated 10.7 years ago by ▴ 320 • written 10.7 years ago by ▴ 80
0
votes
2
replies
1.5k
views
Devel version of easyRNASeq: using the simpleRNASeq method gives an error
Annotation easyRNASeq Annotation easyRNASeq
updated 10.7 years ago by ▴ 80 • written 10.7 years ago by ▴ 320
0
votes
1
reply
1.6k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage Annotation GO Cancer Organism edgeR DESeq GenomicRanges Rsubread easyRNASeq GO
updated 11.1 years ago by ▴ 320 • written 11.1 years ago by 52k
0
votes
1
reply
2.1k
views
Using a countDataSet as input data in DESeq2
easyRNASeq easyRNASeq
updated 11.1 years ago by 43k • written 11.1 years ago by ★ 13k
0
votes
0
replies
1.3k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage Annotation GO Cancer Organism edgeR DESeq GenomicRanges easyRNASeq Coverage GO
11.1 years ago Nicolas Delhomme ▴ 320
0
votes
2
replies
1.7k
views
easyRNAseq and DEseq for no replicate RNAseq
RNASeq PROcess easyRNASeq RNASeq PROcess easyRNASeq
updated 11.1 years ago by ▴ 320 • written 11.1 years ago by ▴ 10
0
votes
8
replies
2.3k
views
Using easyRNASeq package: question about BAM/BAI and links to them
easyRNASeq easyRNASeq
updated 11.1 years ago by ▴ 80 • written 11.1 years ago by ▴ 80
0
votes
7
replies
3.0k
views
GTF file error when using easyRNAseq�
Annotation Organism BSgenome BSgenome DESeq easyRNASeq Annotation Organism BSgenome DESeq
updated 11.1 years ago by ★ 1.2k • written 11.1 years ago by ★ 13k
0
votes
1
reply
1.5k
views
eayRNASeq with Ensemble GRCh37 help
Annotation Organism easyRNASeq DESeq2 Annotation Organism easyRNASeq DESeq2
updated 11.3 years ago by ★ 1.2k • written 11.3 years ago by ▴ 10
0
votes
5
replies
1.9k
views
EasyRNAseq - error in building count table - Error in unlist
Sequencing RNASeq edgeR easyRNASeq Sequencing RNASeq edgeR easyRNASeq
updated 11.3 years ago by ★ 1.2k • written 11.3 years ago by ★ 13k
0
votes
0
replies
1.3k
views
error in "count" for SummarizedExperiment in easyRNASeq
easyRNASeq DESeq2 easyRNASeq DESeq2
11.3 years ago Lescai, Francesco ▴ 380
0
votes
0
replies
1.2k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Annotation Organism edgeR DESeq easyRNASeq Annotation Organism edgeR DESeq easyRNASeq
11.5 years ago Gabriele Zoppoli ▴ 50
0
votes
1
reply
1.2k
views
it is strange that I cannot get the fpkm by using easyRNASeq
Annotation BSgenome BSgenome easyRNASeq Annotation BSgenome BSgenome easyRNASeq
updated 11.7 years ago by ▴ 30 • written 11.7 years ago by ★ 13k
0
votes
1
reply
1.6k
views
some problems of easyRNASeq� : about the gtf files
Annotation easyRNASeq Annotation easyRNASeq
updated 11.8 years ago by ★ 1.2k • written 11.8 years ago by ★ 13k
0
votes
0
replies
1.5k
views
RPKM calculation genewise
Normalization Visualization easyRNASeq Normalization Visualization easyRNASeq
11.8 years ago delhomme@embl.de ★ 1.2k
0
votes
0
replies
945
views
easyRNA adapting annotations to avoid overlapping synthetic exons
Annotation Organism easyRNASeq Annotation Organism easyRNASeq
11.8 years ago delhomme@embl.de ★ 1.2k
0
votes
0
replies
1.1k
views
easyRNA adapting annotations to avoid overlapping synthetic exons
Annotation Organism easyRNASeq Annotation Organism easyRNASeq
11.8 years ago Bayles, Darrell ▴ 10
0
votes
0
replies
982
views
easyRNASeq read counts varying when recounting same sample!
Annotation GO biomaRt easyRNASeq Annotation GO biomaRt easyRNASeq
11.9 years ago delhomme@embl.de ★ 1.2k
0
votes
0
replies
908
views
easyRNASeq read counts varying when recounting same sample!
biomaRt easyRNASeq biomaRt easyRNASeq
11.9 years ago René ▴ 30
0
votes
1
reply
1.6k
views
Problems in running easyRNASeq
Annotation Organism DEGseq easyRNASeq Annotation Organism DEGseq easyRNASeq
updated 11.9 years ago by ★ 1.2k • written 11.9 years ago by ★ 13k
0
votes
2
replies
2.4k
views
using easyRNASeq to calculate RPKM values
easyRNASeq easyRNASeq
updated 11.9 years ago by ★ 1.2k • written 11.9 years ago by ▴ 260
0
votes
1
reply
1.4k
views
easyRNAseq remove overlapping features
Annotation BSgenome BSgenome IRanges easyRNASeq Annotation BSgenome BSgenome IRanges
updated 12.0 years ago by ★ 1.2k • written 12.0 years ago by ▴ 160
0
votes
0
replies
1.7k
views
Error message with transcriptCounts(easyRNASeq) performed with gtf file generated with cuffmerge
RNASeq Annotation Normalization Cancer Organism BSgenome BSgenome easyRNASeq RNASeq
12.0 years ago Richard Friedman ★ 2.0k
0
votes
7
replies
2.5k
views
Getting counts for previously undetected transcripts and genes with easyRNASeq: comparison to Cufflinks
RNASeq Annotation Cancer edgeR cqn easyRNASeq RNASeq Annotation Cancer edgeR cqn
updated 12.1 years ago by ★ 1.2k • written 12.1 years ago by ★ 2.0k
0
votes
2
replies
1.4k
views
error message with easyRNASeq use case
RNASeq Cancer Organism easyRNASeq RNASeq Cancer Organism easyRNASeq
updated 12.1 years ago by 67k • written 12.1 years ago by ★ 2.0k
0
votes
1
reply
1.1k
views
easyRNASeq and edgeR
BSgenome BSgenome edgeR easyRNASeq BSgenome BSgenome edgeR easyRNASeq
updated 12.1 years ago by ★ 1.2k • written 12.1 years ago by ★ 13k
0
votes
3
replies
2.1k
views
Error: 'devel' version requires a more recent R
GUI Cancer easyRNASeq GUI Cancer easyRNASeq
updated 12.1 years ago by 21k • written 12.1 years ago by ★ 2.0k
0
votes
0
replies
1.4k
views
get synthetic exon dataset with easyRNASeq
RNASeq Alignment Annotation Normalization GO PROcess GenomicRanges DEXSeq easyRNASeq GO
12.1 years ago delhomme@embl.de ★ 1.2k
0
votes
1
reply
1.5k
views
error in easyRNASeq
RNASeq BSgenome BSgenome easyRNASeq RNASeq BSgenome BSgenome easyRNASeq
updated 12.1 years ago by ★ 1.2k • written 12.1 years ago by ▴ 510
0
votes
0
replies
863
views
bam files in sub-directories
easyRNASeq easyRNASeq
12.1 years ago RenéBöttcher ▴ 20
0
votes
1
reply
965
views
bam files in sub-directories
easyRNASeq easyRNASeq
updated 12.1 years ago by ★ 1.2k • written 12.1 years ago by ★ 13k
0
votes
0
replies
970
views
question on easyRNASeq developer version
GLAD easyRNASeq GLAD easyRNASeq
12.2 years ago delhomme@embl.de ★ 1.2k
0
votes
0
replies
1.0k
views
get synthetic exon dataset with easyRNASeq
RNASeq Annotation Normalization GO PROcess easyRNASeq RNASeq Annotation Normalization GO
12.2 years ago delhomme@embl.de ★ 1.2k
0
votes
1
reply
975
views
warnings on easyRNASeq package
Annotation Organism PROcess GenomicRanges easyRNASeq Annotation Organism PROcess
updated 12.2 years ago by ▴ 10 • written 12.2 years ago by ★ 1.2k
0
votes
2
replies
1.2k
views
RNAseq object
RNASeq DESeq easyRNASeq RNASeq DESeq easyRNASeq
updated 12.2 years ago by ★ 4.2k • written 12.2 years ago by ★ 13k
50 results • Page 1 of 1
Recent ...
Replies
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Hervé Pagès 16k
> I have requested gDNAx developers for a feature request to turn off seqlevelsStyle(txdb) Yes, that's the right course of action. `seqlev…
Comment: ISO a solution to rank-order introns by transcript by mat149 ▴ 80
Hey, In revisiting this question, the following code works for the '+' strand. I am having issues with demarcating intron rank by transcri…
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
Awards • All
Popular Question to Ali Barry ▴ 40
Popular Question to gabriel.hoffman ▴ 170
Popular Question to Jenny Drnevich ★ 2.0k
Popular Question to martin.grigorov ▴ 10
Scholar to James W. MacDonald 67k
Locations • All
United States, 33 minutes ago
United Kingdom, 40 minutes ago
United States, 1 hour ago
United States, 1 hour ago
United Kingdom, 1 hour ago
Traffic: 516 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