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Showing :
getgeo
•
reset
2
votes
6
replies
2.1k
views
error reading GSE using getGEO()
r
geo
getgeo
6.8 years ago
jaleh.amo
• 0
2
votes
2
replies
1.4k
views
getGEO from GEOquery doesn't return probesets
geoquery
getgeo
probeset
updated 7.1 years ago by
James W. MacDonald
68k • written 7.1 years ago by
dnedveck
• 0
3
votes
2
replies
4.1k
views
getGEO error when trying to download a series matrix file
GEOquery
getGEO
7.1 years ago
rubi
▴ 110
3
votes
4
replies
1.6k
views
getGEO Error: Duplicate identifiers for rows
geoquery
getgeo
updated 7.2 years ago by
Sean Davis
21k • written 7.2 years ago by
umahajan
▴ 10
3
votes
11
replies
5.0k
views
GEOquery http:// url error
geoquery
error
getgeo
microarray
geo
updated 7.3 years ago by
Sean Davis
21k • written 8.0 years ago by
jblack29
• 0
3
votes
1
reply
1.3k
views
getGEO Error: Duplicate identifiers for rows
getGEO
updated 7.4 years ago by
James W. MacDonald
68k • written 7.4 years ago by
cg
▴ 10
0
votes
2
replies
2.0k
views
Error in GEOquery
geoquery
getgeo
R
updated 8.0 years ago by
James W. MacDonald
68k • written 8.0 years ago by
rk489
• 0
2
votes
2
replies
1.9k
views
Problem with GEOquery R package in Windows when trying to download specific GEO processed data
geoquery
affymetrix microarrays
windows8
getGEO
updated 8.0 years ago by
Sean Davis
21k • written 8.1 years ago by
svlachavas
▴ 840
2
votes
2
replies
2.8k
views
GEOquery error in downloading SOFT files
geoquery
getgeo
GEO
8.4 years ago
hzc363
▴ 20
0
votes
2
replies
2.4k
views
Why getGEO returns an expressionset with zero features ?
getgeo
9.1 years ago
xishan78
• 0
0
votes
0
replies
1.1k
views
getGEO is taking too long time for a file that is already locally cached
getgeo
r
9.1 years ago
alptaciroglu
▴ 50
0
votes
1
reply
4.3k
views
getGEO Failed to connect to ftp.ncbi.nlm.nih.gov port 21: Timed out
getGEO
9.2 years ago
maedakus
▴ 10
2
votes
4
replies
1.9k
views
GEOquery: Shifted data columns in phenotype data
geoquery
getgeo
9.3 years ago
rfb
• 0
2
votes
2
replies
2.1k
views
getGEO error
getgeo
geoquery
updated 9.3 years ago by
Gordon Smyth
52k • written 9.3 years ago by
maedakus
▴ 10
4
votes
8
replies
7.9k
views
getGEO - cannot Open URL issue
getGEO
R
GEOquery
9.5 years ago
alptaciroglu
▴ 50
2
votes
4
replies
3.6k
views
getGEO function not identifying local file
geoquery
getGEO
9.6 years ago
Prasanth
▴ 20
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Comment: error in ChAMP loading file
by
janwilseo
• 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped"
by
James W. MacDonald
68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis
by
donnycrimson
• 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender
by
donnycrimson
• 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list'
by
donnycrimson
• 0
Have you considered streamlining how you handle data input to mitigate these issues. It might help to define the parameters more strictly …
Votes
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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