Showing : filtering • reset
3
votes
11
replies
1.3k
views
SD filtering before DEG analysis with limma : possible or not ?
filtering STD DEG limma
updated 10 months ago by 50k • written 10 months ago by • 0
5
votes
7
replies
1.2k
views
Question about setting threshold using filtering by expression on genes in edgeR
filtering RNA-Seq CPM edgeR filterByExpr
updated 11 months ago by 50k • written 11 months ago by ▴ 10
5
votes
8
replies
1.9k
views
Question on performing filtering by gene expression on a normalized matrix in limma?
expression R filtering limma
19 months ago • updated 17 months ago mohammedtoufiq91 ▴ 10
0
votes
0
replies
500
views
Filtering single-channel Affymetrix probes
filtering probe MicroarrayData
20 months ago Fatemeh • 0
3
votes
5
replies
2.1k
views
How to analyze pre-processed RNA-Seq data from GEO based on the deseq R package for filtering and DE analysis
deseq rna-seq filtering DE deseq2
updated 4.1 years ago by 41k • written 4.1 years ago by ▴ 830
0
votes
0
replies
976
views
Filter TCGAbiolinks by Gene in Query
tcgabiolinks filtering gdc TCGABiolinks rnaseq
4.3 years ago jam526 • 0
2
votes
4
replies
1.7k
views
Filtering, minimum sample number, and condition in edgeR
edger filtering
updated 5.4 years ago by ★ 7.9k • written 5.4 years ago by ▴ 20
0
votes
1
reply
709
views
How to keep the genes whose counts are equal or greater than 10
deseq2 filtering
updated 5.4 years ago by 65k • written 5.4 years ago by • 0
1
vote
1
reply
832
views
DeSeq2 independant filtering barely removes any genes
deseq2 differential gene expression filtering
updated 5.8 years ago by 41k • written 5.8 years ago by • 0
1
vote
2
replies
1.1k
views
Filtering Rna-seq counts
rna-seq filtering
updated 5.9 years ago by 50k • written 5.9 years ago by ▴ 20
5
votes
12
replies
6.5k
views
Filtering step for differential analysis in edgeR
r edger differential gene expression filtering bioconductor
updated 6.0 years ago by 50k • written 6.0 years ago by ▴ 110
4
votes
8
replies
1.5k
views
edgeR error when trying to filter peaks with low read counts
edger R filtering
6.0 years ago camerond • 0
0
votes
2
replies
1.2k
views
Filtering genes with a minimum number of counts between samples
DESeq2 filtering
updated 6.2 years ago by 41k • written 6.2 years ago by ▴ 40
1
vote
1
reply
1.5k
views
Filtering a BED file according to genomic annotation
bed files bedtools filtering chipseq
updated 6.3 years ago by ★ 28k • written 6.3 years ago by ▴ 60
0
votes
2
replies
1.7k
views
DiffBind remove low count intervals for differential analysis
diffbind filtering
6.4 years ago gasta88 • 0
0
votes
2
replies
1.0k
views
DiffBind dba.report inconsistent output when using filter parameters
diffbind dba.report filtering
6.4 years ago konstantopoulos • 0
1
vote
3
replies
5.2k
views
DESeq2: How to manually perform filtering and outlier detection?
deseq2 filtering outliers count outliers
updated 6.7 years ago by ★ 13k • written 6.7 years ago by ▴ 10
1
vote
6
replies
1.9k
views
Nonspecific filtering of microarray data
microarray affymetrix microarrays pre-filtering filtering nonspecific filtering
updated 6.9 years ago by ★ 13k • written 6.9 years ago by • 0
2
votes
2
replies
1.0k
views
Limma filtering based on treatment group
limma filtering
updated 6.9 years ago by ★ 13k • written 6.9 years ago by ▴ 60
3
votes
4
replies
1.3k
views
Any way to detach or simplify nested GRangesList ?
grangeslist filtering r
7.6 years ago Jurat Shahidin ▴ 80
1
vote
2
replies
2.1k
views
edgeR filtering: how to remove meta tags and lowly expressed reads (cpm)
edger filtering cpm
updated 7.7 years ago by 50k • written 7.7 years ago by • 0
6
votes
4
replies
1.7k
views
Filtering after a contrast
deseq2 r filtering bioconductor
updated 7.7 years ago by ★ 13k • written 7.7 years ago by • 0
0
votes
1
reply
1.0k
views
Does the normalization pipeline for scran include filtering out genes with low counts?
filtering scran
updated 7.7 years ago by ★ 28k • written 7.7 years ago by • 0
8
votes
11
replies
9.4k
views
Filtering of RNA-seq data in EdgeR
rnaseq edger filtering
updated 7.8 years ago by ▴ 20 • written 7.9 years ago by ▴ 10
5
votes
12
replies
1.9k
views
Filtering before the linear modelling and empirical bayes steps
DEG Limma Filtering
updated 8.1 years ago by ★ 7.9k • written 8.1 years ago by ▴ 20
2
votes
4
replies
2.2k
views
Analysis of Affymetrix Mouse Gene 2.0 ST arrays
affymetrix limma filtering
updated 9.0 years ago by 65k • written 9.0 years ago by • 0
2
votes
7
replies
2.7k
views
Different filters with edgeR
edger filtering
9.1 years ago cpcantalapiedra • 0
3
votes
10
replies
2.3k
views
Question about converting rownames of an expression dataset to their corresponding gene symbols
filtering bioconductor genesymbols expressionset
9.1 years ago svlachavas ▴ 830
28 results • Page 1 of 1
Recent ...
Replies
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Awards • All
Scholar to James W. MacDonald 65k
Popular Question to shepherl 3.8k
Scholar to Michael Love 41k
Supporter to JKim • 0
Popular Question to Gordon Smyth 50k
Locations • All
France, 22 minutes ago
San Diego, 38 minutes ago
Canada, 51 minutes ago
EMBL Heidelberg, 54 minutes ago
UPF, Barcelona, Spain, 1 hour ago
Traffic: 918 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