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Hi-c
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diffHic ICE normalization PCA with NAs
diffHic
normalization
pca
NAs
HI-C
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
inzirio
▴ 10
1
vote
5
replies
1.4k
views
visualize Hi-C .cool file in R
Hi-C
HiTC
5.8 years ago
ta_awwad
▴ 10
3
votes
2
replies
2.3k
views
Best way to get HiCUP-mapped Hi-C data into diffHiC
hicup
hi-c
diffhic
homer
6.8 years ago
e.jacobson
▴ 10
1
vote
4
replies
1.8k
views
Is there a way to align Hi-C half heatmaps to Gviz track?
Gviz
Hi-C
Heatmap
updated 8.0 years ago by
Nicolas Servant
▴ 260 • written 8.0 years ago by
Merienne Nicolas
▴ 120
1
vote
10
replies
2.1k
views
FourC object from scratch
hi-c
HiTC
fourcseq
8.5 years ago • updated 8.4 years ago
Nicolas Servant
▴ 260
2
votes
4
replies
1.7k
views
diffHic-package_PreparePairs-function-error:"missing chromosomes in cut site list"
diffHic
PreparePairs
Hi-c
cutGenome
8.9 years ago • updated 8.8 years ago
rulicosentino
• 0
6 results • Page
1 of 1
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Comment: Which input file is used for DGEList in EgdeR?
by
i.atanasoai
• 0
Understood, Thank you very much for the reply, very kind.
Comment: Which input file is used for DGEList in EgdeR?
by
Michael Love
41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Michael Love
41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts
by
Michael Love
41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
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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