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hic
•
reset
0
votes
0
replies
226
views
hichip fragments extraction chip seq
ChIPSeqData
interact
GenomicRanges
HiC
12 weeks ago
user_bioinfo
• 0
0
votes
2
replies
492
views
Java error while running HiCDC overview code
JuicerTools
HiC
HiCDCPlus
Java
Juicer
written 11 months ago by
IsMM
• 0
0
votes
0
replies
1000
views
Job:
Bioinformatics Research Scientist- Epigenetics Group
HiC
Epigenetics
HiCHIP
ChIPSeq
2.4 years ago
xubeisi
• 0
0
votes
0
replies
1.0k
views
How to prepare HiCUP BAM output as input for HOMER?
HOMER
HiCUP
BAM
HiC
3.0 years ago
Ankit
▴ 20
0
votes
3
replies
996
views
HiCDCPlus / HiC-DC+ is not found
HiCDCPlus
HiC-DC+
HiCcompare
HiC
updated 2.5 years ago by
merve.sahn
• 0 • written 4.0 years ago by
mtS
• 0
0
votes
0
replies
678
views
Looking for a package to efficiently plot Hi-C contact maps
HiC
hicrep
HiCcompare
4.0 years ago
changxu.fan
▴ 20
1
vote
7
replies
1.8k
views
problem recasting InteractionSet into a DGEList
diffHic
GenomicInteractions
edgeR
HiC
cooler
updated 4.2 years ago by
Aaron Lun
★ 28k • written 4.2 years ago by
Marco Blanchette
▴ 30
0
votes
1
reply
1.0k
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 4.5 years ago by
Aaron Lun
★ 28k • written 4.5 years ago by
girardot
• 0
0
votes
1
reply
1.0k
views
.cool to .txt cooler2bedpe does not work HiCompare
HiCompare
HiC
cool
updated 5.1 years ago by
Kevin Blighe
★ 4.0k • written 5.1 years ago by
c.chakraborty
• 0
0
votes
3
replies
1.7k
views
extracting scaffoldnames from HiC contact matrix
hic
updated 5.8 years ago by
bioparticles.melly
• 0 • written 5.8 years ago by
m.t.lorenc
• 0
0
votes
9
replies
1.7k
views
from denove contig assembly to chromosome bins
diffhic
gothic
hicup
hic-c
hic
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
mictadlo
▴ 10
0
votes
1
reply
1.1k
views
Error in scanBam(bam_fn) : could not find function "scanBam"
hic
diffhic
gothic
hicup
hic-c
5.9 years ago
mictadlo
▴ 10
1
vote
1
reply
1.6k
views
extract HiC contacts for a given BEDPE set of coordinates
hic
diffhic
chromatin
bedpe
updated 6.2 years ago by
Aaron Lun
★ 28k • written 6.2 years ago by
gryderart
• 0
2
votes
1
reply
1.4k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
hwick1
▴ 20
0
votes
8
replies
1.8k
views
How to get specific fragment/read interactions from HiC (diffHiC) data?
diffhic
hic
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
hwick1
▴ 20
2
votes
2
replies
1.6k
views
Extracting non-interacting hic reads to create a sam/bam file
diffhic
hicpro
hic
7.3 years ago
sergio.espeso-gil
• 0
0
votes
3
replies
1.8k
views
GOTHiC hg19 error
GOTHiC
hic
9.1 years ago
Nathan Sheffield
▴ 10
4
votes
20
replies
2.8k
views
scaling loess curves
HiTC
gothic
diffhic
HiC
9.2 years ago
Bogdan
▴ 670
18 results • Page
1 of 1
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Answer: Differential Expression Analysis with unbalanced batches without replication bet
by
Gordon Smyth
51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected.
by
Adam
• 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
Comment: Problem at champ.load
by
icecreamlover
• 0
Hello! Were you able to figure this out? I am running into the same error!
Comment: ChAMP - obtaining beta values using EPICv2 annotation
by
icecreamlover
• 0
Hello, Were you able to fix the error? I used the same document and I am running into the same error. I am curious if you have any feedba…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected.
by
Adam
• 0
Can this please be revisited and corrected ASAP? I'm encountering the same issue, using a slightly more modern version of R (4.1.0). It s…
Votes
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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51k
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★ 4.1k
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shepherl
4.1k
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▴ 100
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Mikhail Dozmorov
▴ 30
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