Showing : filtering • reset
3
votes
5
replies
198
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 14 months ago by 33k • written 14 months ago by ▴ 780
0
votes
0
replies
124
views
Filter TCGAbiolinks by Gene in Query
tcgabiolinks filtering gdc TCGABiolinks rnaseq
17 months ago jam526 • 0
2
votes
4
replies
391
views
Filtering, minimum sample number, and condition in edgeR
edger filtering
updated 2.6 years ago by 7.6k • written 2.6 years ago by • 0
0
votes
1
reply
213
views
How to keep the genes whose counts are equal or greater than 10
deseq2 filtering
updated 2.6 years ago by 57k • written 2.6 years ago by • 0
1
vote
1
reply
257
views
DeSeq2 independant filtering barely removes any genes
deseq2 differential gene expression filtering
updated 3.0 years ago by 33k • written 3.0 years ago by • 0
1
vote
2
replies
404
views
Filtering Rna-seq counts
rna-seq filtering
updated 3.1 years ago by 43k • written 3.1 years ago by ▴ 10
4
votes
12
replies
2.9k
views
Filtering step for differential analysis in edgeR
r edger differential gene expression filtering bioconductor
updated 3.1 years ago by 43k • written 3.1 years ago by ▴ 90
4
votes
8
replies
638
views
edgeR error when trying to filter peaks with low read counts
edger R filtering
3.2 years ago camerond • 0
0
votes
2
replies
428
views
Filtering genes with a minimum number of counts between samples
DESeq2 filtering
updated 3.4 years ago by 33k • written 3.4 years ago by ▴ 40
1
vote
1
reply
443
views
Filtering a BED file according to genomic annotation
bed files bedtools filtering chipseq
updated 3.5 years ago by ★ 26k • written 3.5 years ago by ▴ 60
0
votes
2
replies
888
views
DiffBind remove low count intervals for differential analysis
diffbind filtering
3.5 years ago gasta88 • 0
0
votes
2
replies
475
views
DiffBind dba.report inconsistent output when using filter parameters
diffbind dba.report filtering
3.6 years ago konstantopoulos • 0
1
vote
3
replies
2.3k
views
DESeq2: How to manually perform filtering and outlier detection?
deseq2 filtering outliers count outliers
updated 3.9 years ago by 13k • written 3.9 years ago by • 0
1
vote
6
replies
887
views
Nonspecific filtering of microarray data
microarray affymetrix microarrays pre-filtering filtering nonspecific filtering
updated 4.1 years ago by 13k • written 4.1 years ago by • 0
2
votes
2
replies
508
views
Limma filtering based on treatment group
limma filtering
updated 4.1 years ago by 13k • written 4.1 years ago by ▴ 40
3
votes
4
replies
613
views
Any way to detach or simplify nested GRangesList ?
grangeslist filtering r
4.7 years ago Jurat Shahidin ▴ 70
1
vote
2
replies
1.2k
views
edgeR filtering: how to remove meta tags and lowly expressed reads (cpm)
edger filtering cpm
updated 4.8 years ago by 43k • written 4.8 years ago by • 0
4
votes
4
replies
758
views
Filtering after a contrast
deseq2 r filtering bioconductor
updated 4.9 years ago by 13k • written 4.9 years ago by • 0
0
votes
1
reply
633
views
Does the normalization pipeline for scran include filtering out genes with low counts?
filtering scran
updated 4.9 years ago by ★ 26k • written 4.9 years ago by • 0
6
votes
11
replies
4.6k
views
Filtering of RNA-seq data in EdgeR
rnaseq edger filtering
updated 5.0 years ago by ▴ 10 • written 5.1 years ago by • 0
5
votes
12
replies
1.0k
views
Filtering before the linear modelling and empirical bayes steps
DEG Limma Filtering
updated 5.2 years ago by 7.6k • written 5.3 years ago by ▴ 20
2
votes
4
replies
1.4k
views
Analysis of Affymetrix Mouse Gene 2.0 ST arrays
affymetrix limma filtering
updated 6.1 years ago by 57k • written 6.1 years ago by • 0
2
votes
7
replies
1.8k
views
Different filters with edgeR
edger filtering
6.2 years ago cpcantalapiedra • 0
3
votes
10
replies
1.5k
views
Question about converting rownames of an expression dataset to their corresponding gene symbols
filtering bioconductor genesymbols expressionset
6.3 years ago svlachavas ▴ 780
24 results • Page 1 of 1
Recent ...
Replies
Comment: dispersion increasing for extreme high mean counts by P1000 • 0
Thanks very much for sharing your thoughts
Answer: dispersion increasing for extreme high mean counts by Michael Love 33k
*"we expect a high degree of variance for highly-expressed genes (a given gene may be highly expressed in one condition but not another)"* …
Answer: Complex design with paired and unpaired samples with edgeR RNA-seq DE analysis by Gordon Smyth 43k
In edgeR, you would need to do two separate analyses, a paired analysis of A vs B and an unpaired analysis of A vs C. That might be the bes…
Comment: change text size in plotmd functtion by Gordon Smyth 43k
Yes, you can save any plot in R. See the help pages: ``` ?postscript ?pdf ?png ``` If you are using a gui like Rstudio or R for Windows …
Comment: change text size in plotmd functtion by najib • 0
I mean the axis x and y and their number as well change the font to bold. also is it possible to store the produced graph as follow: p<- p…
Votes
Answer: dispersion increasing for extreme high mean counts
Answer: dispersion increasing for extreme high mean counts
Comment: change text size in plotmd functtion
Comment: Annotation using QSEA package
Comment: Binding matrix created by DiffBind
Awards • All
Scholar to Gordon Smyth 43k
Scholar to Robert Castelo ★ 2.7k
Scholar to Michael Love 33k
Scholar to James W. MacDonald 57k
Scholar to Martin Morgan 25k
Locations • All
United States, just now
United States, 2 minutes ago
WEHI, Melbourne, Australia, 4 minutes ago
South Korea, 13 minutes ago
United Kingdom, 47 minutes ago
Traffic: 272 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