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hic
•
reset
0
votes
0
replies
498
views
hichip fragments extraction chip seq
ChIPSeqData
interact
GenomicRanges
HiC
14 months ago
user_bioinfo
• 0
0
votes
2
replies
752
views
Java error while running HiCDC overview code
JuicerTools
HiC
HiCDCPlus
Java
Juicer
written 22 months ago by
IsMM
• 0
0
votes
0
replies
1.3k
views
Job:
Bioinformatics Research Scientist- Epigenetics Group
HiC
Epigenetics
HiCHIP
ChIPSeq
3.4 years ago
xubeisi
• 0
0
votes
0
replies
1.4k
views
How to prepare HiCUP BAM output as input for HOMER?
HOMER
HiCUP
BAM
HiC
3.9 years ago
Ankit
▴ 20
0
votes
3
replies
1.2k
views
HiCDCPlus / HiC-DC+ is not found
HiCDCPlus
HiC-DC+
HiCcompare
HiC
updated 3.5 years ago by
merve.sahn
• 0 • written 5.0 years ago by
mtS
• 0
0
votes
0
replies
873
views
Looking for a package to efficiently plot Hi-C contact maps
HiC
hicrep
HiCcompare
5.0 years ago
changxu.fan
▴ 20
1
vote
7
replies
2.2k
views
problem recasting InteractionSet into a DGEList
diffHic
GenomicInteractions
edgeR
HiC
cooler
updated 5.2 years ago by
Aaron Lun
★ 29k • written 5.2 years ago by
Marco Blanchette
▴ 30
0
votes
1
reply
1.3k
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 5.5 years ago by
Aaron Lun
★ 29k • written 5.5 years ago by
girardot
• 0
0
votes
1
reply
1.3k
views
.cool to .txt cooler2bedpe does not work HiCompare
HiCompare
HiC
cool
updated 6.1 years ago by
Kevin Blighe
★ 4.0k • written 6.1 years ago by
c.chakraborty
• 0
0
votes
3
replies
2.0k
views
extracting scaffoldnames from HiC contact matrix
hic
updated 6.8 years ago by
bioparticles.melly
• 0 • written 6.8 years ago by
m.t.lorenc
• 0
0
votes
9
replies
2.3k
views
from denove contig assembly to chromosome bins
diffhic
gothic
hicup
hic-c
hic
updated 6.9 years ago by
Aaron Lun
★ 29k • written 6.9 years ago by
mictadlo
▴ 10
0
votes
1
reply
1.3k
views
Error in scanBam(bam_fn) : could not find function "scanBam"
hic
diffhic
gothic
hicup
hic-c
6.9 years ago
mictadlo
▴ 10
1
vote
1
reply
2.0k
views
extract HiC contacts for a given BEDPE set of coordinates
hic
diffhic
chromatin
bedpe
updated 7.2 years ago by
Aaron Lun
★ 29k • written 7.2 years ago by
gryderart
• 0
2
votes
1
reply
1.7k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 8.0 years ago by
Aaron Lun
★ 29k • written 8.0 years ago by
hwick1
▴ 20
0
votes
8
replies
2.3k
views
How to get specific fragment/read interactions from HiC (diffHiC) data?
diffhic
hic
updated 8.0 years ago by
Aaron Lun
★ 29k • written 8.0 years ago by
hwick1
▴ 20
2
votes
2
replies
1.9k
views
Extracting non-interacting hic reads to create a sam/bam file
diffhic
hicpro
hic
8.2 years ago
sergio.espeso-gil
• 0
0
votes
3
replies
2.0k
views
GOTHiC hg19 error
GOTHiC
hic
10.1 years ago
Nathan Sheffield
▴ 10
4
votes
20
replies
3.5k
views
scaling loess curves
HiTC
gothic
diffhic
HiC
10.1 years ago
Bogdan
▴ 670
18 results • Page
1 of 1
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
That's weird. Using the example data works for me. ``` > example(read10xCounts) rd10xC> # Mocking up some 10X genomics output. rd10xC> ex…
Comment: Join BOC Sciences at Drug Discovery Chemistry
by
teamardigen
• 0
Sounds like an exciting event for anyone passionate about small molecule innovation. The focus on discovery and optimization really drives …
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
I am, but perhaps I'm not understanding how it should work. > sse = DropletUtils::read10xCounts(curr_files[1], mtx.class = 'SVT_Sparse…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Did you use the development version as Aaron suggested? There is an argument to read the market matrix file directly into an `SVT_SparseMat…
Votes
DESeq2 for candidate gene analysis
Join BOC Sciences at Drug Discovery Chemistry
Drug datasets for RNA-seq
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
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