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TSS
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How to test or estimate differential TSS/promoter usage/expression based on RNA-seq data only
tximport
differential isoform usage
salmon
tss
rna-seq
6.9 years ago
Steffen Heyne
▴ 10
1
vote
18
replies
3.2k
views
Normalization of chip-seq data in manually specified regions using CSAW
chip-seq
TSS
TMM
csaw
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
saadmurtazakhan
▴ 10
1
vote
2
replies
9.3k
views
Interpreting TSS Enrichment Score Summary
atacseq
atacseqqc
tss
enrichment
updated 3.7 years ago by
Ou, Jianhong
★ 1.3k • written 3.7 years ago by
Arpi Beshlikyan
• 0
0
votes
2
replies
1.2k
views
calculating TSS enrichment from ATACseq data
GenomicRanges
Views
ATACseq
TSS
5.0 years ago
tangming2005
▴ 190
0
votes
3
replies
1.8k
views
How to handle multi-TSS genes in Repitools?
repitools
promoter
tss
annotation
6.1 years ago
Ryan C. Thompson
★ 7.9k
0
votes
1
reply
1.3k
views
[ChIPseeker; feature request] More flexibility in specifying the TSS region
ChIPseeker
featurerequest
tss
updated 8.2 years ago by
Guangchuang Yu
★ 1.2k • written 8.2 years ago by
balwierz
▴ 40
0
votes
0
replies
909
views
CAGEr get TSS in bed file
TSS
promoter
cage
cager
5.4 years ago
bharata1803
▴ 60
7 results • Page
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Comment: DNAString: Standard checksum function?
by
Henrik Bengtsson
★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Comment: fgsea significant result
by
Chris
• 0
Thanks ATpoint! Setting a fixed seed can reproduce the same result. However, if someone else analyze the same data with different seed, the…
Comment: SGSeq: moving toward diffex from SGSeq analysis
by
Sara
• 0
Thank you for your response. I have another question about saving the sgvc result as a CSV file. I would appreciate your help, please. ``` …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I tried different block lengths first and considered 100000 to be ideal because of the almost similar inter-range distance. S1= bootRange…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
The segmentation and block length are key parameters. We recommend for example blocks of length ~500kb. It would help if you would post yo…
Votes
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
package goseq seems to be not available on the latest version of R
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