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starr
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how to analyse chip-chip on normalized data without bpmap file or how to select bpmap file for your data(data downloaded from NCBI geo)
starr
chip-chip
7.0 years ago
sudhirjadhao2009
• 0
0
votes
4
replies
1.2k
views
Two color Nucleosomes ChIP-ChIP data analysis using Ringo package.
limma
ringo
starr
8.7 years ago
ashubiochem
• 0
0
votes
1
reply
1.4k
views
Ringo Plots Only Partially Made
Ringo
affy
tilingarray
plot
starr
8.8 years ago
bruce.moran
▴ 30
0
votes
1
reply
994
views
Starr package: cmarrt.ma error
Starr
Starr
updated 10.1 years ago by
Julie Zhu
★ 4.3k • written 10.1 years ago by
Paul
▴ 10
0
votes
0
replies
950
views
Starr package: cmarrt.ma error
Starr
Starr
10.1 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.1k
views
readCelFile function in Starr is crashing R
Starr
Starr
updated 12.4 years ago by
Kasper Daniel Hansen
★ 6.5k • written 12.4 years ago by
Guest User
★ 13k
0
votes
1
reply
826
views
help with Starr
GO
Starr
GO
Starr
updated 12.9 years ago by
Martin Morgan
25k • written 12.9 years ago by
Yongde Bao
▴ 170
0
votes
4
replies
1.3k
views
Reading GFF using Starr
Starr
Starr
updated 13.1 years ago by
zacher@lmb.uni-muenchen.de
▴ 50 • written 13.2 years ago by
Feseha Abebe-Akele
▴ 30
0
votes
1
reply
1.6k
views
tilingArray getting started questions
GO
Yeast
tilingArray
Starr
GO
Yeast
tilingArray
Starr
13.6 years ago
Noah Dowell
▴ 410
0
votes
3
replies
1.5k
views
ChIP-chip sequence bias not removed
Normalization
vsn
Starr
Normalization
vsn
Starr
updated 13.8 years ago by
zacher@lmb.uni-muenchen.de
▴ 50 • written 13.8 years ago by
Edwin Groot
▴ 230
0
votes
6
replies
1.6k
views
Question RE: getEnrichedGo in ChIPpeakAnno package
Yeast
ChIPpeakAnno
Starr
Yeast
ChIPpeakAnno
Starr
updated 13.9 years ago by
Julie Zhu
★ 4.3k • written 13.9 years ago by
Noah Dowell
▴ 410
0
votes
1
reply
894
views
Starr - MAT normalization
Normalization
Starr
Normalization
Starr
updated 14.0 years ago by
Raphael Gottardo
▴ 40 • written 14.0 years ago by
Hans-Ulrich Klein
▴ 330
0
votes
1
reply
889
views
Ringo/Starr getProfiles function
Annotation
Starr
Annotation
Starr
updated 14.4 years ago by
zacher@lmb.uni-muenchen.de
▴ 50 • written 14.4 years ago by
Noah Dowell
▴ 410
0
votes
1
reply
927
views
Ringo/Starr getProfiles function
biomaRt
Ringo
Starr
biomaRt
Ringo
Starr
updated 14.4 years ago by
Wolfgang Huber
★ 13k • written 14.4 years ago by
Noah Dowell
▴ 410
0
votes
1
reply
805
views
Please Help with Starr Package
Normalization
Starr
Normalization
Starr
updated 14.4 years ago by
Martin Morgan
25k • written 14.4 years ago by
Noah Dowell
▴ 410
0
votes
1
reply
1.2k
views
Help with Oligo Package: Extracting and Graphing
Transcription
Normalization
Yeast
probe
affy
graph
tilingArray
oligo
pdInfoBuilder
Starr
updated 14.5 years ago by
Tobias Straub
▴ 430 • written 14.5 years ago by
Noah Dowell
▴ 410
16 results • Page
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Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough?
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
This comment helps.
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
I am not sure how your comment helps here?
Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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