Showing : tximportdata • reset
0
votes
1
reply
154
views
Error: lexical error: invalid char in json text (alevin-seurat)
tximpo tximportData alevinQC
updated 20 days ago by ★ 4.7k • written 24 days ago by • 0
0
votes
1
reply
351
views
Need new version : tx2gene.gencode.v47.csv
tximportData
updated 11 weeks ago by ★ 4.1k • written 11 weeks ago by • 0
4
votes
5
replies
793
views
DESeq Input from Salmon + tximport/tximeta
tximportData summarizeToGene tximport DESeq2 salmon
3 months ago LuciaNhu • 0
0
votes
4
replies
687
views
Create count matrix from multible quant sf files from different directories
tximportData tximport salmon
9 months ago JG13 • 0
2
votes
9
replies
1.9k
views
Importing RSEM processed data already formatted as a summarized experiment into DESeq2
tximport tximportData DESeq2
20 months ago Ndimensional ▴ 20
0
votes
2
replies
1.0k
views
tximport error in reading salmon output files?
tximport tximportData
updated 13 months ago by • 0 • written 20 months ago by • 0
2
votes
3
replies
1.8k
views
Error while reading rsem files in tximport
DESeq2 tximport rsem RNASeq tximportData
2.3 years ago mohammedtoufiq91 ▴ 10
3
votes
3
replies
1.5k
views
What is the correct way to import transcript abundances from 3' Quantseq results that calculated by kallisto?
tximport tximportData Quantseq kallisto
2.4 years ago • updated 2.3 years ago duhwa.lee • 0
0
votes
4
replies
1.6k
views
Alternative for wininet method in tximeta
DESeq2 tximport tximportData tximeta
2.7 years ago uhlkatie • 0
2
votes
3
replies
1.3k
views
Import RSEM output without sample data
DESeq2 tximportData tximport
updated 3.0 years ago by 43k • written 3.1 years ago by • 0
0
votes
3
replies
1.2k
views
tximport fails when RSEM output options produce files with additional columns?
DESeq2 tximportData tximpor
updated 3.6 years ago by 43k • written 3.7 years ago by • 0
0
votes
1
reply
1.1k
views
Multi-factor Analysis in DeSEQ2
tximport R tximportData RNASeq DESeq2
updated 3.8 years ago by 43k • written 3.8 years ago by • 0
0
votes
7
replies
2.1k
views
Problem with Tximport
tximportData tximport
4.1 years ago agoesmartini • 0
0
votes
1
reply
1.2k
views
How to use tx import on output of abundance file
tximportData tximport
updated 4.3 years ago by ★ 4.0k • written 4.3 years ago by • 0
0
votes
4
replies
1.5k
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 4.9 years ago by 43k • written 4.9 years ago by • 0
1
vote
2
replies
1.3k
views
What is the expected location of bootstrap samples relative to quant.sf file ?
tximport tximportdata salmon
6.4 years ago fcuy047 • 0
1
vote
2
replies
1.4k
views
trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
updated 6.4 years ago by 43k • written 6.4 years ago by • 0
1
vote
8
replies
36k
views
How to create tx2gene.gencode.v27.csv
tximportdata
updated 6.7 years ago by 43k • written 6.7 years ago by • 0
2
votes
6
replies
1.9k
views
[DESeq2] Different results from tutorial
deseq2 tximportdata tximport
updated 6.8 years ago by 43k • written 6.8 years ago by • 0
0
votes
1
reply
2.8k
views
could not find function "tximport"
tximportdata
updated 7.0 years ago by 52k • written 7.0 years ago by ▴ 30
0
votes
9
replies
3.9k
views
Upgrade bioconductor 3.2 to 3.3
bioclIte tximportData
updated 7.1 years ago by ▴ 80 • written 8.7 years ago by ▴ 40
0
votes
3
replies
15k
views
Problem installing tximportData
tximportdata
8.0 years ago elg • 0
3
votes
5
replies
3.0k
views
txImport: a gene seems missing from the sample data
txImportData txImport
updated 4.1 years ago by 68k • written 8.0 years ago by • 0
0
votes
1
reply
1.9k
views
How to remove genes with 0 counts in tximport?
tximport deseq tximportdata deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
0
votes
7
replies
2.0k
views
PCA results different from th same sample but different counting method
deseq2 pca tximportdata htseqcounts
updated 8.7 years ago by 43k • written 8.7 years ago by ▴ 40
25 results • Page 1 of 1
Recent ...
Replies
Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
Awards • All
Popular Question to svlachavas ▴ 840
Popular Question to Matthew McCormack ▴ 180
Popular Question to James W. MacDonald 68k
Popular Question to shepherl 4.1k
Popular Question to Marco • 0
Locations • All
United States, 9 minutes ago
United States, 1 hour ago
UPF, Barcelona, Spain, 2 hours ago
India, 2 hours ago
United States, 2 hours ago
Traffic: 1173 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