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paulsengroup
/
hictk
Blazing fast toolkit to work with .hic and .cool files
MIT License
22
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Expose bin_ptr() accessor wherever it makes sense
#199
robomics
closed
4 weeks ago
1
Update .pre-commit-config.yaml
#198
robomics
closed
1 month ago
1
Fix bug when fetching whole-genome interactions as sparse matrix
#197
robomics
closed
1 month ago
1
Fix bug when fetching whole-genome interactions as dense matrix
#196
robomics
closed
1 month ago
1
Fix docs
#195
robomics
closed
1 month ago
0
hictk published on Bioinformatics!
#194
robomics
closed
1 month ago
0
Using Apptainer/Singularity gives `FAILURE! hictk encountered the following error: filesystem error: temp_directory_path: No such file or directory`
#193
paulmenzel
closed
3 weeks ago
4
How to load the converted .hic file into Juicerbox
#191
Nuturetree
closed
2 months ago
6
how to load
#190
Nuturetree
closed
2 months ago
1
Prepare for release
#189
robomics
closed
2 months ago
1
Bump docker/build-push-action from 5 to 6
#188
dependabot[bot]
closed
1 month ago
0
Various fixes to the build system
#187
robomics
closed
2 months ago
1
Fix typo in conanfile.py
#186
robomics
closed
3 months ago
1
[feature] transformers::ToDataFrame(): support iterating over dataframe in chunks
#185
robomics
opened
3 months ago
0
Drop unnecessary dependency from conanfile.py
#184
robomics
closed
3 months ago
0
Update docs
#183
robomics
closed
3 months ago
0
Ensure pixel transformers are well-behaved when given an empty range of pixels
#182
robomics
closed
3 months ago
1
For the time being, refuse to build on big-endian architectures
#181
robomics
closed
3 months ago
1
Support opening .hic files with only 1 bin per chromosome
#180
robomics
closed
3 months ago
1
Support for fetching interactions from the lower triangle when it makes sense
#179
robomics
closed
3 months ago
1
Error creating All:All matrix
#178
Phlya
closed
3 months ago
3
Fix typo
#177
Phlya
closed
3 months ago
1
Refactor code to return interactions as sparse/dense Eigen matrices
#176
robomics
closed
3 months ago
1
[feature] support query mirroring when fetching interactions as arrow::Table
#175
robomics
closed
3 months ago
0
[feature] support query mirroring when fetching interactions as sparse matrix
#174
robomics
closed
3 months ago
0
Update Docker images used by CI
#173
robomics
closed
3 months ago
1
[feature] support reading/writing .hic files on big-endian platforms
#172
robomics
opened
3 months ago
1
[feature] convert read_dense()/read_sparse() methods to transformers
#171
robomics
closed
3 months ago
0
Support fetching interactions as arrow::Table
#170
robomics
closed
3 months ago
1
Switch from conanfile.txt to conanfile.py
#169
robomics
closed
4 months ago
1
Throw an error when a non-existing folder is passed to --tmpdir
#168
robomics
closed
4 months ago
1
hictk balance: add --no-create-weight-link option
#167
robomics
closed
4 months ago
1
hictk balance: honor --in-memory
#166
robomics
closed
4 months ago
1
Fix fuzzy tests
#165
robomics
closed
4 months ago
1
Add more benchmarks
#164
robomics
closed
4 months ago
1
Bump base Ubuntu image to 24.04
#163
robomics
opened
4 months ago
0
Properly deal with .hic files with missing normalization vectors
#162
robomics
closed
4 months ago
1
[feature] Implement hictk metadata subcommand
#161
robomics
closed
3 weeks ago
0
[bug] hictk dump should raise an exception when weights are not found in .hic file
#160
robomics
closed
4 months ago
0
Add --no-create-weight-link flag to hictk balance subcommands
#159
robomics
closed
4 months ago
0
Fix incorrect overload being called when fetching pixels from cooler files
#158
robomics
closed
4 months ago
1
Reduce latency for specific trans queries on cooler files
#157
robomics
closed
4 months ago
0
Prepare for release
#156
robomics
closed
4 months ago
1
Bump deps
#155
robomics
closed
4 months ago
1
Bugfix: query mirroring
#154
robomics
closed
5 months ago
1
Format project
#153
robomics
closed
5 months ago
1
Improve handling of temporary files
#152
robomics
closed
5 months ago
1
Gracefully deal with files created on Win and read on *NIX
#151
robomics
closed
5 months ago
1
Minor updates to the build system
#150
robomics
closed
5 months ago
1
Drop macOS 11 from CI
#149
robomics
closed
5 months ago
0
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