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vanheeringen-lab
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gimmemotifs
Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed installation instructions and usage examples.
https://gimmemotifs.readthedocs.io/en/master
MIT License
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Cannot install package
#320
DrNamwob
opened
4 months ago
1
Maelstrom: failing during MultiTaskLasso
#319
shaunmahony
closed
5 months ago
1
Maelstrom: uninformative error when duplicate regions present
#318
shaunmahony
opened
5 months ago
0
Supporting for metagenomic data
#317
OtaviaW
opened
6 months ago
0
Gimmemotif motif scan 'score' metric
#316
momur
opened
7 months ago
0
FYI: SafeConfigParser in versioneer not compatible with Python 3.12
#315
laserson
opened
8 months ago
1
Gimme maelstrom didn't work with custom pfm file
#314
Francis3209
opened
8 months ago
0
Incompatibility with certain common PWM files
#313
Mitmischer
opened
8 months ago
0
Exception on differential enrichment
#312
Mitmischer
opened
8 months ago
1
Exception on motif enrichment analysis
#311
Mitmischer
opened
8 months ago
0
Develop
#310
siebrenf
opened
11 months ago
0
fix: types and field consistency in `c_metrics` module
#309
cameronraysmith
closed
11 months ago
1
Update Maelstrom report
#308
siebrenf
closed
11 months ago
0
gimme motif2factors: No Orthologs Found for any factor in my custom organism genome
#307
apposada
opened
1 year ago
6
FR: support pandas 2
#306
siebrenf
opened
1 year ago
0
not too short, not too long
#305
siebrenf
opened
1 year ago
0
skip short seqs
#304
siebrenf
opened
1 year ago
0
use malloc
#303
siebrenf
opened
1 year ago
0
Segmentation fault on scan_all function
#302
nikolamilosevic86
opened
1 year ago
5
Dependencies
#301
siebrenf
closed
1 year ago
0
Use .annotation_bed_file attribute of Genome
#300
BuysDB
closed
1 year ago
0
ConvergenceWarning
#299
siebrenf
opened
1 year ago
1
FutureWarning
#298
siebrenf
opened
1 year ago
0
PerformanceWarning
#297
siebrenf
opened
1 year ago
1
moap deterministic
#296
siebrenf
closed
1 year ago
0
deterministic scanner
#295
siebrenf
closed
1 year ago
0
Imports
#294
siebrenf
closed
1 year ago
0
fix mp.Pool leaks & warnings
#293
siebrenf
closed
1 year ago
0
Logging
#292
siebrenf
closed
1 year ago
0
fix warning in validate_matrix()
#291
siebrenf
closed
1 year ago
0
Push most recent version (0.17.2) to gimmemotifs
#290
roskamsh
closed
1 year ago
1
Develop
#289
JGASmits
closed
1 year ago
1
Fix HTML reports
#288
siebrenf
closed
1 year ago
0
gimme threshold error
#287
siebrenf
closed
1 year ago
0
xgboost dependency
#286
JGASmits
closed
1 year ago
1
set_genomes function in Scanner() cannot be passed additional arguments for class Genome
#285
roskamsh
closed
2 years ago
1
Odd behaviour using --fraction
#284
IanCodes
closed
1 year ago
0
deterministic gimme
#283
siebrenf
closed
1 year ago
0
clustered motifs for invertebrates
#282
perinom
opened
2 years ago
1
optional dependencies
#281
siebrenf
closed
2 years ago
0
Questions about GimmeMotifs output
#280
paumarc
opened
2 years ago
1
What does inferred mean in combined.motif2factors?
#279
roryk
closed
2 years ago
2
fixed pandas in gimmemotifs.report.py
#278
siebrenf
closed
2 years ago
0
Provide background peaks file as .bed instead of FASTA?
#277
apposada
opened
2 years ago
1
Avoid infinite contributions to motif.information_content
#276
oalmelid
closed
2 years ago
1
Motif.information_content is NaN if any entry in the pfm is 0.
#275
oalmelid
opened
2 years ago
0
Error in maelstrom
#274
shaunmahony
closed
2 years ago
2
error when using CIS-BP database for gimme match
#273
lynnyummy
closed
2 years ago
2
fix docs
#272
siebrenf
closed
2 years ago
0
Bioconda installation
#271
ChemaMD
opened
2 years ago
22
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