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repitools
•
reset
0
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3
replies
2.2k
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How to handle multi-TSS genes in Repitools?
repitools
promoter
tss
annotation
6.8 years ago
Ryan C. Thompson
★ 7.9k
1
vote
2
replies
1.6k
views
cpgDensityCalc function in Repitools giving contradictory tools
repitools
bioconductor
cpgDensityCalc
7.7 years ago
divyswar01
• 0
0
votes
0
replies
1.0k
views
Analysis of MBD-seq data without ssl control using BayMeth
Baymeth
methylation
MBD-seq
Repitools
8.5 years ago
pm2015
• 0
0
votes
0
replies
1.0k
views
SssI free analysis in BayMeth/Repitools
repitools
9.4 years ago
Matthias Lienhard
▴ 280
0
votes
0
replies
1.1k
views
Repitools - featureScores - mappability Bsgenome object
BSgenome
BSgenome
Repitools
BSgenome
BSgenome
Repitools
10.8 years ago
Dario Strbenac
★ 1.5k
0
votes
0
replies
1.4k
views
Repitools - featureScores - mappability Bsgenome object
BSgenome
BSgenome
Repitools
BSgenome
BSgenome
Repitools
10.8 years ago
Jaritz,Markus
▴ 20
0
votes
5
replies
2.3k
views
Graph of methylation data around TSS - Repitools or other package?
GO
Repitools
GO
Repitools
updated 11.1 years ago by
Dario Strbenac
★ 1.5k • written 11.1 years ago by
Tim Smith
★ 1.1k
0
votes
0
replies
1.1k
views
Analysing grouped datasets in repitools
limma
Repitools
limma
Repitools
11.8 years ago
Guest User
★ 13k
0
votes
21
replies
7.3k
views
BAM files to Genomic Ranges object
Alignment
convert
Repitools
Alignment
convert
Repitools
updated 13 months ago by
Marge
• 0 • written 12.0 years ago by
José Luis Lavín
▴ 280
0
votes
3
replies
1.9k
views
Repitools/ClusterPlots
BSgenome
BSgenome
Repitools
BSgenome
BSgenome
Repitools
updated 13.1 years ago by
Chao-Jen Wong
▴ 580 • written 13.1 years ago by
Guest User
★ 13k
10 results • Page
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Comment: Cross-validation with multiple control subgroups in limma
by
Ali Barry
▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma
by
Gordon Smyth
52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
by
Robert Castelo
★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS
by
Aidan
▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
by
Michael Love
43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
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