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Showing :
questions
8
votes
16
replies
5.3k
views
9 follow
visualize CNV data based on WGS
CNV
updated 5 weeks ago by
clealk
▴ 50 • written 6.3 years ago by
Bogdan
★ 1.4k
0
votes
0
replies
277
views
filtering SNV/INDEL in tumor-only WGS samples
Tumor-only
samples
5 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
449
views
filtering variants in a Strelka2 VCF file based on AD and AF
Filter
VCF
7 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
338
views
Copy Number Alteration and Loss or Heterozygosity
LOH
CNA
copy-number
updated 10 months ago by
Ram
43k • written 10 months ago by
Bogdan
★ 1.4k
2
votes
3
replies
844
views
fitting a copy number profile to know CNV signatures
CNV
copy
number
LOH
CNA
updated 11 months ago by
LauferVA
4.2k • written 12 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
342
views
allelic copy number variation
LOH
CNA
CNV
copy-number
updated 12 months ago by
Ram
43k • written 12 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
353
views
alelle - specific CNA/LOH
cancer
CNV
genomics
LOH
CNA
13 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
309
views
network alignment and network regression
network
14 months ago by
Bogdan
★ 1.4k
1
vote
0
replies
506
views
CNA/LOH caller on WGS data and chromosomal instability index
CNA
CNV
16 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
521
views
downloading the VCF files of CCLE project (or cancer genomics WGS)
cancer
genomics
WGS
CCLE
VCF
16 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
372
views
packages to detect chromoanagenesis phenomena in germline or cancer genomes
ShatterProof
16 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
291
views
clustering of genome segments
cancer
genomics
epigenetics
17 months ago by
Bogdan
★ 1.4k
3
votes
2
replies
717
views
wig2bed and counting the reads in the peaks
bedtools
ChIP-seq
deeptools
bedops
updated 10 months ago by
Ram
43k • written 18 months ago by
Bogdan
★ 1.4k
2
votes
1
reply
957
views
normalize and compare bigwig files
bigwig
updated 18 months ago by
Matthias Zepper
4.5k • written 18 months ago by
Bogdan
★ 1.4k
0
votes
1
reply
632
views
calling peaks in ChIP-seq datasets from bedgraph files
ChIP-seq
MACS2
updated 19 months ago by
Marco Pannone
▴ 790 • written 19 months ago by
Bogdan
★ 1.4k
0
votes
11
replies
1.9k
views
paired-end reads, idxstats, and samtools and grep
samtools
updated 19 months ago by
LauferVA
4.2k • written 20 months ago by
Bogdan
★ 1.4k
5
votes
8
replies
1.8k
views
converting bedgraph to bigwig by not using ucsc tools
bedgraph
bigwig
20 months ago by
Bogdan
★ 1.4k
3
votes
3
replies
987
views
CWL and Arvados
CWL
workflow
manager
20 months ago by
Bogdan
★ 1.4k
0
votes
1
reply
630
views
SNV, CNA, SV
SV
CNA
SNV
updated 20 months ago by
LauferVA
4.2k • written 20 months ago by
Bogdan
★ 1.4k
2
votes
1
reply
447
views
extracting sequences from a bam file
bam
updated 20 months ago by
LChart
3.9k • written 20 months ago by
Bogdan
★ 1.4k
1
vote
3
replies
1.1k
views
comparisons between 2 ChIP-seq datasets
ChIP-seq
updated 23 months ago by
ATpoint
82k • written 23 months ago by
Bogdan
★ 1.4k
4
votes
3
replies
1.5k
views
computing chromothripsis on cancer genomes
snp
cnv
sv
cancer
updated 23 months ago by
Thind amarinder
▴ 340 • written 5.8 years ago by
Bogdan
★ 1.4k
0
votes
2
replies
589
views
browser to visualize single cell data
scATAC-seq
updated 23 months ago by
lieven.sterck
15k • written 23 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
333
views
HIC databases
Hi-C
2.0 years ago by
Bogdan
★ 1.4k
2
votes
1
reply
598
views
scATAC-seq
scATAC-seq
2.1 years ago by
Bogdan
★ 1.4k
0
votes
0
replies
411
views
ssvQC
ssvQC
2.1 years ago by
Bogdan
★ 1.4k
0
votes
5
replies
1.4k
views
saving png images and X11
scripting
saving
images
and
23 months ago by
Bogdan
★ 1.4k
0
votes
0
replies
489
views
HOMER on AWS
HOMER
2.2 years ago by
Bogdan
★ 1.4k
0
votes
1
reply
647
views
compare the background levels in two chip-seq experiments
ChIPseq
updated 2.2 years ago by
seidel
11k • written 2.2 years ago by
Bogdan
★ 1.4k
0
votes
2
replies
597
views
interchromosomal interactions and 4C
4C
2.2 years ago by
Bogdan
★ 1.4k
1
vote
4
replies
829
views
compare ChIP-seq datasets in two cell lines
ChIP-seq
2.2 years ago by
Bogdan
★ 1.4k
19
votes
10
replies
12k
views
7 follow
workflow management system : WDL, CWL, Ruffus, SnakeMake, etc
pipeline
language
updated 24 months ago by
dariober
14k • written 5.5 years ago by
Bogdan
★ 1.4k
0
votes
1
reply
636
views
4C packages
4C
updated 2.2 years ago by
LauferVA
4.2k • written 2.2 years ago by
Bogdan
★ 1.4k
5
votes
4
replies
1.9k
views
6 follow
bioinformatics pipelines on GCP or AWS
RNA-seq
google
ChIP-seq
cloud
updated 2.1 years ago by
LauferVA
4.2k • written 2.6 years ago by
Bogdan
★ 1.4k
1
vote
1
reply
897
views
shiny apps for DEseq2, edgeR, limma
shiny
limma
DEseq2
edgeR
updated 2.3 years ago by
tbkuipers
▴ 30 • written 2.3 years ago by
Bogdan
★ 1.4k
2
votes
1
reply
2.7k
views
heatmap of genes pseudotime in monocle3
monocle2
monocle3
and
9 weeks ago by
Bogdan
★ 1.4k
0
votes
2
replies
1.1k
views
monocle3 and spData
monocle3
2.5 years ago by
Bogdan
★ 1.4k
0
votes
0
replies
754
views
convert monocle3 into monocle2 cds
monocle
2.5 years ago by
Bogdan
★ 1.4k
1
vote
1
reply
489
views
scanning sequences or promoter sequences with specific motifs
motifs
updated 2.6 years ago by
cpad0112
21k • written 2.6 years ago by
Bogdan
★ 1.4k
0
votes
4
replies
1.0k
views
batch correction in ChIp-seq data
batch
ChIP-seq
updated 2.7 years ago by
rpolicastro
13k • written 2.7 years ago by
Bogdan
★ 1.4k
1
vote
3
replies
1.0k
views
extracting a gene from a gmt file
gmt
pathway
updated 17 months ago by
Ram
43k • written 2.7 years ago by
Bogdan
★ 1.4k
0
votes
1
reply
765
views
downloading fastq files from galaxy
galaxy
updated 2.8 years ago by
swbarnes2
14k • written 2.8 years ago by
Bogdan
★ 1.4k
0
votes
0
replies
589
views
about the batch correction and integration and normalization of scRNA-seq data
normalization
scRNA-seq
3.0 years ago by
Bogdan
★ 1.4k
6
votes
3
replies
1.1k
views
recent Hi-C databases
hi-C
4C
3C
updated 3.0 years ago by
kalavattam
▴ 190 • written 3.3 years ago by
Bogdan
★ 1.4k
3
votes
1
reply
689
views
HI-C analysis in the cloud environment
HI-C
updated 3.0 years ago by
kalavattam
▴ 190 • written 3.1 years ago by
Bogdan
★ 1.4k
0
votes
3
replies
991
views
to annotate BEDPE files
bedtools
annotate
updated 7 months ago by
Lhl
▴ 760 • written 3.1 years ago by
Bogdan
★ 1.4k
0
votes
2
replies
457
views
a simple question about file permissions
SLURM cluster
operating system
3.1 years ago by
Bogdan
★ 1.4k
0
votes
1
reply
977
views
CUT&TAG and CUT&RUN
ChIP-Seq
updated 3.2 years ago by
i.sudbery
19k • written 3.2 years ago by
Bogdan
★ 1.4k
1
vote
5
replies
2.2k
views
scRNA-seq, MONOCLE3, and trajectory reconstruction, and Moran I statistics
scRNA-seq
updated 3.3 years ago by
VolEr
▴ 40 • written 3.5 years ago by
Bogdan
★ 1.4k
0
votes
6
replies
1.1k
views
visualize RNA secondary/tertiary structure, and overlay the primary sequence
RNA
RNA structure
visualization
3.3 years ago by
Bogdan
★ 1.4k
154 results • Page
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