Showing : tximportdata • reset
2
votes
9
replies
1.2k
views
Importing RSEM processed data already formatted as a summarized experiment into DESeq2
tximport tximportData DESeq2
10 months ago Ndimensional ▴ 20
0
votes
9
replies
3.5k
views
Upgrade bioconductor 3.2 to 3.3
bioclIte tximportData
updated 6.3 years ago by ▴ 80 • written 7.9 years ago by ▴ 40
1
vote
8
replies
33k
views
How to create tx2gene.gencode.v27.csv
tximportdata
updated 5.9 years ago by 42k • written 5.9 years ago by • 0
0
votes
7
replies
1.7k
views
PCA results different from th same sample but different counting method
deseq2 pca tximportdata htseqcounts
updated 7.8 years ago by 42k • written 7.8 years ago by ▴ 40
0
votes
7
replies
1.7k
views
Problem with Tximport
tximportData tximport
3.3 years ago agoesmartini • 0
2
votes
6
replies
1.6k
views
[DESeq2] Different results from tutorial
deseq2 tximportdata tximport
updated 6.0 years ago by 42k • written 6.0 years ago by • 0
3
votes
5
replies
2.7k
views
txImport: a gene seems missing from the sample data
txImportData txImport
updated 3.3 years ago by 65k • written 7.2 years ago by • 0
0
votes
4
replies
1.1k
views
Having a hard time creating a Txi object from an existing Salmon output file to convert transcript file to gene id TPM
Salmon tximport tximportdata ensembl
updated 4.1 years ago by 42k • written 4.1 years ago by • 0
0
votes
4
replies
1.1k
views
Alternative for wininet method in tximeta
DESeq2 tximport tximportData tximeta
22 months ago uhlkatie • 0
3
votes
3
replies
939
views
What is the correct way to import transcript abundances from 3' Quantseq results that calculated by kallisto?
tximport tximportData Quantseq kallisto
18 months ago duhwa.lee • 0
0
votes
3
replies
923
views
tximport fails when RSEM output options produce files with additional columns?
DESeq2 tximportData tximpor
updated 2.8 years ago by 42k • written 2.8 years ago by • 0
2
votes
3
replies
1.3k
views
Error while reading rsem files in tximport
DESeq2 tximport rsem RNASeq tximportData
17 months ago mohammedtoufiq91 ▴ 10
2
votes
3
replies
963
views
Import RSEM output without sample data
DESeq2 tximportData tximport
updated 2.2 years ago by 42k • written 2.2 years ago by • 0
0
votes
3
replies
13k
views
Problem installing tximportData
tximportdata
7.2 years ago elg • 0
1
vote
2
replies
1.0k
views
What is the expected location of bootstrap samples relative to quant.sf file ?
tximport tximportdata salmon
5.5 years ago fcuy047 • 0
1
vote
2
replies
1.2k
views
trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
updated 5.6 years ago by 42k • written 5.6 years ago by • 0
0
votes
2
replies
670
views
tximport error in reading salmon output files?
tximport tximportData
updated 3 months ago by • 0 • written 10 months ago by • 0
0
votes
1
reply
2.4k
views
could not find function "tximport"
tximportdata
updated 6.2 years ago by 50k • written 6.2 years ago by ▴ 30
0
votes
1
reply
1.7k
views
How to remove genes with 0 counts in tximport?
tximport deseq tximportdata deseq2
updated 7.3 years ago by 42k • written 7.3 years ago by ▴ 10
0
votes
1
reply
924
views
How to use tx import on output of abundance file
tximportData tximport
updated 3.5 years ago by ★ 3.9k • written 3.5 years ago by • 0
0
votes
1
reply
848
views
Multi-factor Analysis in DeSEQ2
tximport R tximportData RNASeq DESeq2
updated 3.0 years ago by 42k • written 3.0 years ago by • 0
21 results • Page 1 of 1
Recent ...
Replies
Comment: Cannot connect to ExperimentHub server by Jiayu • 0
Many thanks and it also resolved the same issue for me!
Comment: Help with running egsea() by Chris • 0
I tried egsea.ma and got this error: gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0
Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Votes
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
Awards • All
Popular Question to Gyan Prakash Mishra ▴ 10
Popular Question to Gordon Smyth 50k
Popular Question to WouterDeCoster ▴ 130
Scholar to Michael Love 42k
Popular Question to Malcolm Cook ★ 1.6k
Locations • All
United States, 1 minute ago
India, 14 minutes ago
Canada, 1 hour ago
United States, 1 hour ago
United States, 1 hour ago
Traffic: 418 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