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HiC
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0
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399
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Question about RE-agnostic mode for intact Hi-C and Micro-C normalization(HiCDCPlus)
HiC
HiCDCPlus
written 9 weeks ago by
Chaoability
• 0
0
votes
0
replies
630
views
hichip fragments extraction chip seq
ChIPSeqData
interact
GenomicRanges
HiC
18 months ago
user_bioinfo
• 0
0
votes
2
replies
884
views
Java error while running HiCDC overview code
JuicerTools
HiC
HiCDCPlus
Java
Juicer
written 2.2 years ago by
IsMM
• 0
0
votes
0
replies
1.4k
views
Job:
Bioinformatics Research Scientist- Epigenetics Group
HiC
Epigenetics
HiCHIP
ChIPSeq
3.7 years ago
xubeisi
• 0
0
votes
0
replies
1.5k
views
How to prepare HiCUP BAM output as input for HOMER?
HOMER
HiCUP
BAM
HiC
4.2 years ago
Ankit
▴ 20
0
votes
3
replies
1.4k
views
HiCDCPlus / HiC-DC+ is not found
HiCDCPlus
HiC-DC+
HiCcompare
HiC
updated 3.8 years ago by
merve.sahn
• 0 • written 5.3 years ago by
mtS
• 0
0
votes
0
replies
995
views
Looking for a package to efficiently plot Hi-C contact maps
HiC
hicrep
HiCcompare
5.3 years ago
changxu.fan
▴ 20
1
vote
7
replies
2.5k
views
problem recasting InteractionSet into a DGEList
diffHic
GenomicInteractions
edgeR
HiC
cooler
updated 5.5 years ago by
Aaron Lun
★ 29k • written 5.5 years ago by
Marco Blanchette
▴ 30
0
votes
1
reply
1.4k
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 5.8 years ago by
Aaron Lun
★ 29k • written 5.8 years ago by
girardot
• 0
0
votes
1
reply
1.4k
views
.cool to .txt cooler2bedpe does not work HiCompare
HiCompare
HiC
cool
updated 6.4 years ago by
Kevin Blighe
★ 4.0k • written 6.4 years ago by
c.chakraborty
• 0
0
votes
3
replies
2.2k
views
extracting scaffoldnames from HiC contact matrix
hic
updated 7.1 years ago by
bioparticles.melly
• 0 • written 7.1 years ago by
m.t.lorenc
• 0
0
votes
9
replies
2.5k
views
from denove contig assembly to chromosome bins
diffhic
gothic
hicup
hic-c
hic
updated 7.2 years ago by
Aaron Lun
★ 29k • written 7.2 years ago by
mictadlo
▴ 10
0
votes
1
reply
1.4k
views
Error in scanBam(bam_fn) : could not find function "scanBam"
hic
diffhic
gothic
hicup
hic-c
7.2 years ago
mictadlo
▴ 10
1
vote
1
reply
2.2k
views
extract HiC contacts for a given BEDPE set of coordinates
hic
diffhic
chromatin
bedpe
updated 7.5 years ago by
Aaron Lun
★ 29k • written 7.5 years ago by
gryderart
• 0
2
votes
1
reply
1.8k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 8.3 years ago by
Aaron Lun
★ 29k • written 8.3 years ago by
hwick1
▴ 20
0
votes
8
replies
2.5k
views
How to get specific fragment/read interactions from HiC (diffHiC) data?
diffhic
hic
updated 8.3 years ago by
Aaron Lun
★ 29k • written 8.3 years ago by
hwick1
▴ 20
2
votes
2
replies
2.1k
views
Extracting non-interacting hic reads to create a sam/bam file
diffhic
hicpro
hic
8.5 years ago
sergio.espeso-gil
• 0
0
votes
3
replies
2.1k
views
GOTHiC hg19 error
GOTHiC
hic
10.4 years ago
Nathan Sheffield
▴ 20
4
votes
20
replies
3.7k
views
scaling loess curves
HiTC
gothic
diffhic
HiC
10.4 years ago
Bogdan
▴ 670
19 results • Page
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Answer: Subsetting data verses contrasts [DESeq2]?
by
ATpoint
★ 5.0k
This has been asked many times before, please search for relevant posts. In short: Generally it is least tedious to not split the data and …
Comment: Bulk RNAseq analysis for
by
Mariami
• 0
Thank you so much for your help! will try to proceed with the suggestion
Comment: GSEA in R/Bioconductor course
by
a2a2haa
• 0
Academic researchers often share their breakthroughs and course updates through visual stories, making it essential to have tools that pres…
Comment: Bulk RNAseq analysis for
by
Mariami
• 0
Thank you for the explanation. I understand, although at the moment we are limited in our ability to increase N. My concern came from the o…
Answer: Bulk RNAseq analysis for
by
Gordon Smyth
53k
All three packages allow paired comparisons, where the clone is the "pair". limma moreover allows mixed models (just run `voomLmFit` with `…
Votes
Comment: Are transformed values from rlog /vst log2 normalized counts?
Are transformed values from rlog /vst log2 normalized counts?
Answer: Bulk RNAseq analysis for
Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
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