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pinellolab
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dictys
Context specific and dynamic gene regulatory network reconstruction and analysis
GNU Affero General Public License v3.0
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error with genome_homer.sh
#68
Kevinxsn
opened
2 weeks ago
1
Request for the output file static.h5
#67
prsigma
closed
1 month ago
0
NaN's arise in dictys.network.reconstruct
#66
ekernf01
closed
2 months ago
2
creating with "data/coord_rna.tsv.gz"
#65
OneHitKO
closed
2 months ago
3
PermissionError: [Errno 13] Permission denied: 'analysis-blood.tar.xz'
#64
zly19980908
closed
3 months ago
2
RuntimeError: No motif found.
#63
nikithkurella
closed
1 month ago
9
Integration of bulk ATAC-seq data and scRNAa-seq data: what is the "w" in the "PositionID"?
#62
kamisama0101
closed
3 months ago
3
Mathematical description of indirect effects
#61
ekernf01
closed
2 months ago
5
Dev
#60
lingfeiwang
closed
4 months ago
0
Dynamic inference errors using custom subsets
#59
nikithkurella
closed
5 months ago
8
errors running full human multiome
#58
hshcao
closed
4 months ago
3
errors running 1.1 CPU part 1, execution
#57
hshcao
closed
5 months ago
0
ERROR when running 2.1 GPU part, execution
#56
siduanmiao
closed
5 months ago
7
Relaxing too-strong sanity checks in trajectory class.
#55
lingfeiwang
closed
5 months ago
0
Dynamic inference with existing pseudotime values
#54
nikithkurella
closed
5 months ago
4
ValueError: <10 TFs found in motifs.motif file.
#53
nikithkurella
closed
6 months ago
3
human hematopoiesis
#52
master-XS
closed
7 months ago
1
dictys_helper
#51
nikithkurella
closed
6 months ago
4
network strength
#50
Trafalgar-ROOM
closed
8 months ago
2
Creating .h5 output file
#49
e-arslan
closed
9 months ago
1
ChIP-seq datasets from Cistrome database and ChIP-seq + HiC results for evaluation
#48
Zengggg
closed
9 months ago
1
Error when running STREAM trajectory inference on co-embedded data (following in the full-skin tutorial)
#47
HarrisHan2k
closed
9 months ago
1
Can I integrate my own scRNA-seq data and bulk ATAC-seq data?
#46
13021969200
closed
9 months ago
5
Four multiome samples, 2 different treatment conditions
#45
kfenggg
closed
9 months ago
1
Bump actions/stale from 8 to 9
#44
dependabot[bot]
closed
9 months ago
0
Bump actions/setup-python from 4 to 5
#43
dependabot[bot]
closed
9 months ago
0
Can I run dictys only on single-cell data?
#42
SMU-TK-2022
closed
9 months ago
1
Bump actions/github-script from 6 to 7
#41
dependabot[bot]
closed
10 months ago
0
The number of obtained marker genes is very low.
#40
bioinformaticspcj
closed
10 months ago
1
Problem with custom installation
#39
j3gu
closed
11 months ago
3
Run bulk ATAC-seq data failed
#38
bioinformaticspcj
closed
11 months ago
0
Run bulk ATAC-seq data failed!!!
#37
bioinformaticspcj
closed
11 months ago
5
How to use separate scRNA-seq and scATAC-seq data to Create dynamic GRN ?
#36
thinkingpeach-z
closed
10 months ago
2
Suggestions to reduce storage ？？？
#35
bitcometz
closed
1 year ago
3
where I can find update-makefile-variables.py?
#34
bitcometz
closed
1 year ago
1
Is it possible to use fragment files as input? How to dictys for multiple samples?
#33
xgaoo
closed
1 year ago
3
Bump docker/login-action from 2 to 3
#32
dependabot[bot]
closed
1 year ago
0
Preparation of input data
#31
YoonheeJ
closed
1 year ago
2
Bump actions/checkout from 3 to 4
#30
dependabot[bot]
closed
1 year ago
0
How to access to trajectory and expression data for benchmarking
#29
nathanmaulding
closed
1 year ago
14
How to use Bulk ATAC to Run
#28
hzauleibowen
closed
1 year ago
18
ValueError: Subset RNA cells not found in population
#27
orbitalse
closed
1 year ago
2
Use of v10nr_clust_public in SCENIC+
#26
pchiang5
closed
1 year ago
14
Using Dictys in mosaic data
#25
ccruizm
closed
1 year ago
10
Running Dictys makefile static.mk
#24
sureshsatpati
closed
1 year ago
21
Data input type
#23
orbitalse
closed
1 year ago
5
Other motifs from other motif database?
#22
willey2020
closed
1 year ago
2
dynamic regulatory strength plot(with pseudotime)
#21
willey2020
closed
1 year ago
2
Threads vs. Jobs
#20
JBreunig
closed
1 year ago
2
I have an analysis with another tool (e.g. Signac), can I still use dictys？
#19
LalicJ
closed
1 year ago
2
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