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smithlabcode
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dnmtools
Tools for analyzing DNA methylation data
https://dnmtools.readthedocs.io
GNU General Public License v3.0
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Chrom order checks in xcounts
#253
andrewdavidsmith
closed
4 days ago
0
Adding option to force gzip output for xcounts
#252
andrewdavidsmith
closed
4 days ago
0
The hmr command fails when methylation levels are at extremes
#251
andrewdavidsmith
opened
1 week ago
0
P value in diff and dmr
#250
JJJelly77
closed
1 week ago
4
Updating the abismal submodule for changes related to paired-end ambiguity
#249
andrewdavidsmith
closed
3 weeks ago
0
Are there any parameters that need to be tuned for mapping WGBS data to repeat regions?
#248
QianhuiWan
opened
1 month ago
8
Fixing some issues with option parsing on macos
#247
andrewdavidsmith
closed
1 month ago
0
Updates ahead of release v1.4.4
#246
andrewdavidsmith
closed
1 month ago
0
Linting source dealing with BAM files
#245
andrewdavidsmith
closed
1 month ago
0
Adding helper functions for mates in BAM records
#244
andrewdavidsmith
closed
1 month ago
0
Fixing some typos in cleanhp source
#243
andrewdavidsmith
closed
3 months ago
0
Clean hairpins update
#242
andrewdavidsmith
closed
3 months ago
0
Bugfix in min reads for fraction in merge command
#241
andrewdavidsmith
closed
4 months ago
0
Removing the lc command
#240
andrewdavidsmith
closed
4 months ago
0
Removing Makefiles from the repo
#239
andrewdavidsmith
closed
4 months ago
0
One-based variable-step bigWig in kmersites
#238
andrewdavidsmith
closed
4 months ago
0
Yaml output for bsrate
#237
andrewdavidsmith
closed
5 months ago
0
roi default region name
#236
andrewdavidsmith
closed
5 months ago
0
roi accepts xsym input
#235
andrewdavidsmith
closed
5 months ago
0
Adding xcounts_utils.cpp source file
#234
andrewdavidsmith
closed
5 months ago
0
Updating bamxx submodule
#233
andrewdavidsmith
closed
5 months ago
0
Bugfix for unxcount
#232
andrewdavidsmith
closed
5 months ago
0
Adding cpgbins command
#231
andrewdavidsmith
closed
5 months ago
0
Building dnmtools using gcc 8.5.0
#230
andrewdavidsmith
closed
5 months ago
1
Building dnmtools using gcc 8.5.0
#229
andrewdavidsmith
closed
5 months ago
0
More help info printed for roi command
#228
andrewdavidsmith
closed
5 months ago
0
Verbose output for sym and xcounts
#227
andrewdavidsmith
closed
5 months ago
0
Adding tests to Ubuntu build workflow
#226
andrewdavidsmith
closed
5 months ago
0
unxcounts for sym
#225
andrewdavidsmith
closed
5 months ago
0
fixing malformed usage messages
#224
andrewdavidsmith
closed
5 months ago
0
Adding tests for xcounts and unxcounts
#223
andrewdavidsmith
closed
5 months ago
0
pmd fix insufficient data after filter
#222
andrewdavidsmith
closed
5 months ago
0
unxcounts: fixing bug related to threadpool scope
#221
andrewdavidsmith
closed
5 months ago
0
Skip counts file header in levels command
#220
andrewdavidsmith
closed
5 months ago
0
Updates for v1.4.3
#219
andrewdavidsmith
closed
5 months ago
0
makefile am updates
#218
andrewdavidsmith
closed
5 months ago
0
abismal submodule update
#217
andrewdavidsmith
closed
5 months ago
0
version bump
#216
punidramesh
closed
5 months ago
1
fix: return code when input files are missing in bsrate test
#215
punidramesh
closed
6 months ago
0
HMR summary consistent with output
#214
andrewdavidsmith
closed
7 months ago
0
summary hmr_count is non-zero but hmr output file is empty
#213
cb4github
closed
7 months ago
5
Fixing issues template configuration filename
#212
andrewdavidsmith
closed
7 months ago
0
Adding a config file for the issue templates
#211
andrewdavidsmith
closed
7 months ago
0
Reverting uint64_t to size_t in amrfinder code because of compiler errors; will sort this out later
#210
andrewdavidsmith
closed
7 months ago
0
unknown vectorizer cost model ‘very-cheap’
#209
shaohuaihan
closed
5 months ago
6
Debug amrfinder
#208
masarunakajima
closed
7 months ago
0
resolved.
#207
ashraf123456789
closed
10 months ago
0
xcounts header prepend
#206
andrewdavidsmith
closed
10 months ago
0
pmd guarantee coverage
#205
andrewdavidsmith
closed
10 months ago
0
Debugged for a case with small number of cpgs
#204
masarunakajima
closed
10 months ago
0
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