Showing : makecdfenv • reset
2
votes
4
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1.5k
views
Help with microarray analysis (forming cdf files)
microarray affy makecdfenv
updated 9.0 years ago by 65k • written 9.0 years ago by ▴ 10
2
votes
8
replies
4.1k
views
Clariom D Human Microarray CDF file to package
simpleaffy makecdfenv
7.6 years ago jayme.rickman • 0
1
vote
4
replies
2.9k
views
Missing probesets when creating Affymetrix GeneChip miRNA 4.0 CDF package using makecdfenv package
miRNA Microarray cdf makecdfenv miRNA Microarray cdf makecdfenv
updated 10.3 years ago by 65k • written 10.3 years ago by ★ 13k
0
votes
3
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1.3k
views
Working flow_own CEL file reading problem
Normalization cdf affy makecdfenv Normalization cdf affy makecdfenv
updated 18.9 years ago by 65k • written 18.9 years ago by ▴ 40
0
votes
1
reply
989
views
Small bug in function 'countskip.FASTA.entries' from package 'altcdfenvs'
probe affy makecdfenv matchprobes altcdfenvs probe affy makecdfenv matchprobes altcdfenvs
updated 18.4 years ago by ▴ 950 • written 18.4 years ago by ▴ 190
0
votes
5
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1.6k
views
Importing CDF file for custom array using makecdfenv
Microarray GO Survival Cancer cdf Biobase annotate genefilter affy graph makecdfenv GO
updated 17.5 years ago by ▴ 20 • written 17.5 years ago by ★ 2.2k
0
votes
2
replies
1.3k
views
Using Affymetrix PM chips with Bioconductor
Annotation cdf probe makecdfenv Annotation cdf probe makecdfenv
updated 15.1 years ago by ★ 1.2k • written 15.1 years ago by ▴ 20
0
votes
2
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1.2k
views
affy : ReadAffy() fails on HuGene-1_1-st-v1 chips
Microarray cdf affy makecdfenv PROcess oligo cycle Microarray cdf affy makecdfenv oligo
updated 12.2 years ago by 65k • written 12.2 years ago by ▴ 630
0
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0
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684
views
cdf environments for 100k mapping arrays
makecdfenv makecdfenv
19.4 years ago Christopher, Neil NIH/NCI ▴ 70
0
votes
0
replies
737
views
Re: makecdfenv
makecdfenv makecdfenv
21.2 years ago Rafael A. Irizarry ▴ 640
0
votes
1
reply
1.2k
views
Trouble in making the cdf package for Arabidopsis?
cdf probe makecdfenv cdf probe makecdfenv
updated 21.1 years ago by ▴ 640 • written 21.1 years ago by ▴ 20
0
votes
0
replies
1.0k
views
make CDF env (fwd)
Cancer cdf affy makecdfenv Cancer cdf affy makecdfenv
21.1 years ago Wolfgang Huber ★ 13k
0
votes
1
reply
689
views
Trouble installing 'makecdfenv'
makecdfenv makecdfenv
updated 20.3 years ago by ★ 5.5k • written 20.3 years ago by ▴ 20
0
votes
1
reply
709
views
makecdfenv not installed?
cdf makecdfenv cdf makecdfenv
updated 20.0 years ago by ★ 3.9k • written 20.0 years ago by ▴ 10
0
votes
0
replies
760
views
How to create customized probe package for GCRMA?
cdf probe affy makecdfenv gcrma cdf probe affy makecdfenv gcrma
20.0 years ago Kun Zhang ▴ 10
0
votes
1
reply
1.1k
views
How to create a custom CDF ?
mgu74av2 cdf probe affy makecdfenv gcrma mgu74av2 cdf probe affy makecdfenv gcrma
updated 19.8 years ago by ★ 1.1k • written 19.8 years ago by ▴ 10
0
votes
1
reply
730
views
makecdfenv
makecdfenv makecdfenv
updated 19.8 years ago by 65k • written 19.8 years ago by ▴ 80
0
votes
1
reply
768
views
Selecting probe pairs for analysis
cdf probe makecdfenv cdf probe makecdfenv
updated 19.7 years ago by ▴ 950 • written 19.7 years ago by ▴ 60
0
votes
1
reply
756
views
problems using cdfenv
zebrafish cdf makecdfenv simpleaffy zebrafish cdf makecdfenv simpleaffy
updated 19.5 years ago by 65k • written 19.5 years ago by ▴ 510
0
votes
0
replies
821
views
QC questions
zebrafish cdf makecdfenv simpleaffy zebrafish cdf makecdfenv simpleaffy
19.5 years ago Crispin Miller ★ 1.1k
0
votes
0
replies
819
views
Custom CDF files
ChipName cdf probe makecdfenv gcrma ChipName cdf probe makecdfenv gcrma
19.2 years ago Ken Simpson ▴ 70
0
votes
2
replies
976
views
cdf environment for bovine Affy chips
cdf makecdfenv cdf makecdfenv
19.2 years ago Margaret Gardiner-Garden ▴ 160
0
votes
2
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985
views
makecdfenv error
cdf makecdfenv cdf makecdfenv
updated 19.0 years ago by 65k • written 19.0 years ago by ▴ 10
0
votes
1
reply
1.1k
views
solicitation for Affy bovine cdf environment
cdf affy makecdfenv cdf affy makecdfenv
updated 19.0 years ago by 65k • written 19.0 years ago by ▴ 10
0
votes
2
replies
1.0k
views
Missing probesets
cdf affy makecdfenv cdf affy makecdfenv
updated 19.0 years ago by ★ 5.5k • written 19.0 years ago by ▴ 110
0
votes
1
reply
830
views
makecdfenv bug
GO makecdfenv GO makecdfenv
updated 19.0 years ago by ★ 7.4k • written 19.0 years ago by ▴ 140
0
votes
0
replies
815
views
make own CDF package probelm, error:couldn't find function "make.cdf.env"
Microarray Cancer cdf probe makecdfenv Microarray Cancer cdf probe makecdfenv
18.9 years ago James W. MacDonald 65k
0
votes
0
replies
824
views
make own CDF package probelm, error:couldn't find function "make.cdf.env"
cdf probe makecdfenv cdf probe makecdfenv
18.9 years ago Seth Falcon ★ 7.4k
0
votes
1
reply
1.0k
views
affymetrix CDF file problem
cdf makecdfenv cdf makecdfenv
updated 18.9 years ago by 65k • written 18.9 years ago by ▴ 80
0
votes
1
reply
655
views
makecdfenv makePlatformDesign bigendian
makecdfenv makePlatformDesign makecdfenv makePlatformDesign
updated 18.7 years ago by ★ 7.4k • written 18.7 years ago by ▴ 30
0
votes
0
replies
956
views
How do I install custom made CDF in Bioconductor
cdf makecdfenv cdf makecdfenv
18.7 years ago Ruppert Valentino ▴ 270
0
votes
1
reply
844
views
Fusarium CDF
cdf makecdfenv cdf makecdfenv
updated 18.0 years ago by 65k • written 18.0 years ago by ▴ 30
0
votes
0
replies
708
views
makecdfenv, bg.correct
affy makecdfenv affy makecdfenv
18.0 years ago Justin Borevitz ▴ 170
0
votes
5
replies
1.5k
views
Affymetrix Promoter tiling array
cdf makecdfenv cdf makecdfenv
17.7 years ago • updated 17.6 years ago Wu, Xiwei ▴ 350
0
votes
2
replies
2.4k
views
Importing CDF file for custom array using makecdfenv
cdf affy makecdfenv cdf affy makecdfenv
updated 17.7 years ago by ▴ 120 • written 17.7 years ago by ▴ 340
0
votes
1
reply
1.1k
views
new user trying to create a cdf package for custom array
cdf probe affy makecdfenv cdf probe affy makecdfenv
updated 17.7 years ago by 65k • written 17.7 years ago by ▴ 20
0
votes
1
reply
1.2k
views
warning from make.cdf.package - FYI
GO Survival cdf Biobase annotate genefilter graph makecdfenv limma gcrma matchprobes GO
updated 17.5 years ago by 65k • written 17.5 years ago by ★ 2.2k
0
votes
4
replies
1.2k
views
makecdfenv
cdf makecdfenv cdf makecdfenv
updated 17.4 years ago by 25k • written 17.4 years ago by ★ 13k
0
votes
0
replies
864
views
(no subject)
cdf affy makecdfenv convert cdf affy makecdfenv convert
17.3 years ago Charlyn Suarez ▴ 10
0
votes
1
reply
1.1k
views
making a cdf file for expression analysis on a tiling array
cdf affy makecdfenv cdf affy makecdfenv
updated 17.2 years ago by 21k • written 17.2 years ago by ▴ 60
0
votes
4
replies
1.7k
views
affyPLM and exon array question
cdf affy makecdfenv affyPLM cdf affy makecdfenv affyPLM
updated 17.0 years ago by ★ 1.2k • written 17.0 years ago by ▴ 30
0
votes
3
replies
1.7k
views
CDF package in R (windows)
cdf affy makecdfenv cdf affy makecdfenv
16.9 years ago Salim Charaniya ▴ 20
0
votes
6
replies
1.1k
views
mas5calls with make.cdf.env
cdf probe makecdfenv cdf probe makecdfenv
updated 16.9 years ago by 65k • written 16.9 years ago by ★ 1.3k
0
votes
9
replies
1.7k
views
gcrma error? - linked to makeProbePackage ?
cdf probe affy makecdfenv gcrma matchprobes cdf probe affy makecdfenv gcrma matchprobes
updated 16.8 years ago by 65k • written 16.8 years ago by ▴ 90
0
votes
2
replies
1.1k
views
how to make probe environments for use with GCRMA
cdf makecdfenv gcrma cdf makecdfenv gcrma
updated 16.8 years ago by ▴ 50 • written 16.8 years ago by ▴ 290
0
votes
1
reply
857
views
error in makecdfenv
makecdfenv makecdfenv
updated 16.6 years ago by 65k • written 16.6 years ago by ▴ 130
0
votes
1
reply
974
views
affyPLM and exon array question
cdf affy makecdfenv affyPLM cdf affy makecdfenv affyPLM
updated 16.6 years ago by ★ 1.2k • written 16.6 years ago by ★ 2.4k
0
votes
5
replies
1.1k
views
makecdfenv and multi-mapping probes on Mouse Gene 1.0 ST array
cdf probe makecdfenv cdf probe makecdfenv
updated 16.0 years ago by 21k • written 16.0 years ago by ★ 2.0k
0
votes
1
reply
813
views
gcrma problem
cdf affy makecdfenv gcrma cdf affy makecdfenv gcrma
updated 15.7 years ago by 65k • written 15.7 years ago by ▴ 40
0
votes
1
reply
1.3k
views
Prokaryotic_Rhodobacter capsulatus GEP
Epigenetics cdf affy makecdfenv plier affxparser preprocessCore Epigenetics cdf affy
updated 15.4 years ago by ▴ 140 • written 15.4 years ago by 65k
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Comment: DESeq filtering specific to contrasts by Michael Love 41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0
Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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