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hic
•
reset
0
votes
0
replies
275
views
hichip fragments extraction chip seq
ChIPSeqData
interact
GenomicRanges
HiC
4 months ago
user_bioinfo
• 0
0
votes
2
replies
533
views
Java error while running HiCDC overview code
JuicerTools
HiC
HiCDCPlus
Java
Juicer
written 13 months ago by
IsMM
• 0
0
votes
0
replies
1.0k
views
Job:
Bioinformatics Research Scientist- Epigenetics Group
HiC
Epigenetics
HiCHIP
ChIPSeq
2.6 years ago
xubeisi
• 0
0
votes
0
replies
1.1k
views
How to prepare HiCUP BAM output as input for HOMER?
HOMER
HiCUP
BAM
HiC
3.1 years ago
Ankit
▴ 20
0
votes
3
replies
1.0k
views
HiCDCPlus / HiC-DC+ is not found
HiCDCPlus
HiC-DC+
HiCcompare
HiC
updated 2.7 years ago by
merve.sahn
• 0 • written 4.2 years ago by
mtS
• 0
0
votes
0
replies
709
views
Looking for a package to efficiently plot Hi-C contact maps
HiC
hicrep
HiCcompare
4.2 years ago
changxu.fan
▴ 20
1
vote
7
replies
1.9k
views
problem recasting InteractionSet into a DGEList
diffHic
GenomicInteractions
edgeR
HiC
cooler
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
Marco Blanchette
▴ 30
0
votes
1
reply
1.1k
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 4.7 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
girardot
• 0
0
votes
1
reply
1.1k
views
.cool to .txt cooler2bedpe does not work HiCompare
HiCompare
HiC
cool
updated 5.3 years ago by
Kevin Blighe
★ 4.0k • written 5.3 years ago by
c.chakraborty
• 0
0
votes
3
replies
1.8k
views
extracting scaffoldnames from HiC contact matrix
hic
updated 6.0 years ago by
bioparticles.melly
• 0 • written 6.0 years ago by
m.t.lorenc
• 0
0
votes
9
replies
1.8k
views
from denove contig assembly to chromosome bins
diffhic
gothic
hicup
hic-c
hic
updated 6.1 years ago by
Aaron Lun
★ 28k • written 6.1 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
6.1 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 6.4 years ago by
Aaron Lun
★ 28k • written 6.4 years ago by
gryderart
• 0
2
votes
1
reply
1.4k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 7.2 years ago by
Aaron Lun
★ 28k • written 7.2 years ago by
hwick1
▴ 20
0
votes
8
replies
1.9k
views
How to get specific fragment/read interactions from HiC (diffHiC) data?
diffhic
hic
updated 7.2 years ago by
Aaron Lun
★ 28k • written 7.2 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
7.4 years ago
sergio.espeso-gil
• 0
0
votes
3
replies
1.8k
views
GOTHiC hg19 error
GOTHiC
hic
9.3 years ago
Nathan Sheffield
▴ 10
4
votes
20
replies
2.9k
views
scaling loess curves
HiTC
gothic
diffhic
HiC
9.4 years ago • updated 9.3 years ago
Bogdan
▴ 670
18 results • Page
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Answer: Differential variability modelling with vst() expression
by
Gordon Smyth
52k
See Phipson, B., Oshlack, A. DiffVar: a new method for detecting differential variability with application to methylation in cancer and …
Answer: Differential variability modelling with vst() expression
by
Michael Love
43k
Looking at differential variance across groups, where you regress out orthogonal nuisance factors from VST data, seems correct and would po…
Answer: Installation error for Rsamtools.
by
James W. MacDonald
67k
It's already installed. Note the warning: ``` Warning message: package(s) not installed when version(s) same as or greater than curren…
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
Nicholas
• 0
Just an update on this: I tried ```tximport``` with ```tx2gene``` objects from the three annotation packages and from the GTF file itself. …
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
Nicholas
• 0
Got it, so using the GTF directly rather than any of the annotation packages will yield more accurate results than any of the packages? I g…
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
Why did PCA plots look exactly the same after adjusting for batch covariate in DESeq2 design?
A: Trajectory analysis for single cell sequencing
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