Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
diffHiC
•
reset
4
votes
20
replies
2.5k
views
scaling loess curves
HiTC
gothic
diffhic
HiC
8.7 years ago
Bogdan
▴ 670
5
votes
12
replies
3.0k
views
How to use diffHiC with existing contact matrices?
diffHiC
HiCPro
diffhic
7.4 years ago
Sameet Mehta
▴ 30
0
votes
10
replies
1.9k
views
error running presplit_map.py
diffHic
6.6 years ago • updated 6.5 years ago
Eichan
• 0
0
votes
9
replies
1.5k
views
from denove contig assembly to chromosome bins
diffhic
gothic
hicup
hic-c
hic
updated 5.4 years ago by
Aaron Lun
★ 28k • written 5.4 years ago by
mictadlo
▴ 10
0
votes
8
replies
1.6k
views
How to get specific fragment/read interactions from HiC (diffHiC) data?
diffhic
hic
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
hwick1
▴ 20
2
votes
7
replies
1.2k
views
diffHic: minimum counts per bin
diffhic
edger
7.4 years ago
andreucat91
• 0
1
vote
7
replies
1.7k
views
Error while running normOffsets in diffhic
diffhic
csaw
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
shopnil99
• 0
1
vote
7
replies
1.6k
views
problem recasting InteractionSet into a DGEList
diffHic
GenomicInteractions
edgeR
HiC
cooler
updated 3.7 years ago by
Aaron Lun
★ 28k • written 3.7 years ago by
Marco Blanchette
▴ 30
0
votes
6
replies
1.3k
views
min enrichment in peak calling with diffHiC?
diffhic
peak
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
hwick1
▴ 20
0
votes
6
replies
1.7k
views
diffHic preparepairs issue
diffhic
8.6 years ago
fine418
• 0
1
vote
5
replies
1.3k
views
diffHiC differential HiC analysis starting from Ginteractions object
diffhic
interactionset
7.8 years ago
Vivek.b
▴ 100
1
vote
5
replies
1.7k
views
diffHic preparePairs() does not identify paired-end reads
diffHic
preparePairs
paired
BAM
updated 8.2 years ago by
Aaron Lun
★ 28k • written 8.2 years ago by
ilyco
• 0
1
vote
4
replies
1.1k
views
diffHic:Fails to load bam file during preparePairs
diffhic
7.7 years ago • updated 7.6 years ago
manjulathimma
• 0
2
votes
4
replies
1.8k
views
diffHic-package_PreparePairs-function-error:"missing chromosomes in cut site list"
diffHic
PreparePairs
Hi-c
cutGenome
8.9 years ago
rulicosentino
• 0
1
vote
4
replies
1.3k
views
Problem in finding NB dispersion for my HiC datasets
diffhic
updated 7.6 years ago by
James W. MacDonald
65k • written 7.6 years ago by
manjulathimma
• 0
1
vote
3
replies
1.4k
views
diffHic: How to remove extra chromosomes like chrUn_gl00* from pairParam object
diffHic
updated 7.7 years ago by
tidecrepep
• 0 • written 7.7 years ago by
manjulathimma
• 0
0
votes
3
replies
4.3k
views
Error while processing BAM file with Picard FixMateInformation
diffHic
diffhic
updated 6.5 years ago by
geryk.jan
• 0 • written 8.5 years ago by
koustav.pal
• 0
0
votes
3
replies
900
views
Error in plotDI in pacakge diffHic
diffHic
plotDI
7.6 years ago
Andrew
• 0
1
vote
3
replies
1.2k
views
saving raw interaction matrices using diffHic
diffhic
interaction matrix
8.5 years ago
roladali
▴ 20
0
votes
3
replies
1.0k
views
diffHic presplit_map.py --sig option for HiC libraries prepared with restriction enzyme cocktail from Arima genomics
diffhic
Arima Genomics
presplit_map.py
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
shopnil99
• 0
2
votes
3
replies
1.0k
views
diffHic presplit_map.py pysam.SamtoolsError
diffHic
pysam.SamtoolsError
pysam.sort
4.8 years ago
shopnil99
• 0
1
vote
3
replies
1.0k
views
diffHiC preparePairs error
diffhic
preparepairs
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
roladali
▴ 20
0
votes
3
replies
1.3k
views
csaw intallation issue: cannot find "lib" in Rhtslib installation
diffhic
csaw
Rhtslib
updated 6.5 years ago by
Martin Morgan
25k • written 6.5 years ago by
favorov
• 0
1
vote
3
replies
1.1k
views
Interpreting strand orientation plots in diffHic
diffhic
updated 7.5 years ago by
Aaron Lun
★ 28k • written 7.5 years ago by
Darya Vanichkina
▴ 120
0
votes
3
replies
1.2k
views
diffHic: alternative input?
diffhic
7.8 years ago
chiara.a.nicoletti
• 0
0
votes
2
replies
799
views
Can't normalize samples in diffHic
diffHic
2.8 years ago
arielpaulson
▴ 20
0
votes
2
replies
1.5k
views
diffHiC read loss when loading BAM to HDF
diffhic
updated 8.7 years ago by
Aaron Lun
★ 28k • written 8.7 years ago by
koustav.pal
• 0
0
votes
2
replies
991
views
generate ContactMatrix from InteractionSet object
diffhic
7.7 years ago
kamal.fartiyal84
▴ 10
1
vote
2
replies
933
views
Removing trended biases between HiC libraries
diffhic
updated 7.5 years ago by
Aaron Lun
★ 28k • written 7.5 years ago by
Darya Vanichkina
▴ 120
3
votes
2
replies
2.4k
views
Best way to get HiCUP-mapped Hi-C data into diffHiC
hicup
hi-c
diffhic
homer
6.9 years ago • updated 6.8 years ago
e.jacobson
▴ 10
2
votes
2
replies
1.4k
views
Extracting non-interacting hic reads to create a sam/bam file
diffhic
hicpro
hic
6.8 years ago
sergio.espeso-gil
• 0
0
votes
2
replies
726
views
Pre-processing for diffHiC
diffHiC
updated 5.5 years ago by
Aaron Lun
★ 28k • written 5.5 years ago by
James W. MacDonald
65k
0
votes
2
replies
905
views
diffHic ICE normalization PCA with NAs
diffHic
normalization
pca
NAs
HI-C
updated 5.1 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
inzirio
▴ 10
1
vote
2
replies
876
views
rotPlaid error "Error in if (x.min >= x.max) { : missing value where TRUE/FALSE needed"
diffhic
rotPlaid
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
shopnil99
• 0
2
votes
2
replies
860
views
diffHic's totalCounts fails with multiple files, but rest of test code works
diffHic
2.8 years ago
nelsonmo
• 0
0
votes
1
reply
649
views
diffHiC error in mergePairs.
diffHiC
rdhf5
updated 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
kaivalya.shevade
• 0
0
votes
1
reply
879
views
diffHiC: Error when call preparePairs
diffhic
updated 7.8 years ago by
Aaron Lun
★ 28k • written 7.8 years ago by
tolemac
• 0
0
votes
1
reply
873
views
diffHiC statistical test to check differences between conditions
diffHiC
statistical test
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
lazaris
• 0
0
votes
1
reply
779
views
diffHiC-analyzing HiC experiments prepared with different enzymes
diffhic
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
roladali
▴ 20
2
votes
1
reply
1.2k
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
hwick1
▴ 20
1
vote
1
reply
1.4k
views
extract HiC contacts for a given BEDPE set of coordinates
hic
diffhic
chromatin
bedpe
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
gryderart
• 0
0
votes
1
reply
841
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
girardot
• 0
0
votes
1
reply
906
views
Error in scanBam(bam_fn) : could not find function "scanBam"
hic
diffhic
gothic
hicup
hic-c
5.4 years ago
mictadlo
▴ 10
0
votes
1
reply
922
views
diffHic - incorporating NB-loess, CNV, and ICE offset into DGEList object
diffhic
updated 8.0 years ago by
Aaron Lun
★ 28k • written 8.0 years ago by
wliao
• 0
0
votes
1
reply
1.1k
views
DiffHic-package. Identify the name of bins with over or underrepresentation of reads mapped -marginCounts- . Extracting data from DIList objects
MarginCounts
squareCounts
DIList
DiffHic
updated 8.8 years ago by
Aaron Lun
★ 28k • written 8.8 years ago by
rulicosentino
• 0
1
vote
1
reply
1.5k
views
Loading a precomputed interaction matrix into diffHiC
diffhic
updated 8.0 years ago by
Aaron Lun
★ 28k • written 8.0 years ago by
Darya Vanichkina
▴ 120
0
votes
1
reply
1.1k
views
DiffHic package - heatmap generation from normalized data
diffhic
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
rulicosentino
• 0
2
votes
1
reply
1.2k
views
How to read in bam file that is output from presplit_map.py using the GenomicAlignment package
diffhic
updated 8.8 years ago by
Aaron Lun
★ 28k • written 8.8 years ago by
mrk.carty
▴ 30
0
votes
1
reply
1.0k
views
diffHic package plotPlaid. Visualize multiple inter-chromosomal and intra-chromosomal interactions in the same heatmap
diffhic
GRanges
updated 8.5 years ago by
Aaron Lun
★ 28k • written 8.5 years ago by
rulicosentino
• 0
0
votes
1
reply
1.1k
views
How to run plotPlaid in diffHic Package using output from hic Pro
plotPlaid
diffHic
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
Andrew
• 0
50 results • Page
1 of 1
Recent ...
Replies
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
That ll be helpful. Thank you.
Comment: Log-cpm values from limma
by
Shaimaa Gamal
• 0
I have performed RUVg correction and extracted W, factors of unwanted variation. According to limma guide, > In the limma approach to RNA…
Comment: DSS CpG coverage threshold
by
j.gilbert
• 0
Might be a bit late for the original poster :') but in case anyone else is wondering, the DSS user guide says: *Q: Do I need to filter out…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
Segmentation is of the whole genome, I'll write some code for doing this later today.
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
I'll take a look later. For next time, I've edited your post by enclosing the code in triple backticks (on their own link). This properly …
Votes
Bioconductor 3.19 is Released!
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
Awards
• All
Popular Question
to
ATpoint
★ 4.1k
Teacher
to
Michael Love
42k
Popular Question
to
Haibo Liu
• 0
Popular Question
to
HS
▴ 10
Popular Question
to
DevelopingHippo
• 0
Locations
• All
Ireland,
10 minutes ago
India,
12 minutes ago
United States,
12 minutes ago
United States,
14 minutes ago
Canada,
29 minutes ago
Traffic: 734 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6