mlbi-bitool 0.2.3__tar.gz → 0.2.4__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/PKG-INFO +1 -1
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/pyproject.toml +1 -1
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/bistack.py +2 -2
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool.egg-info/PKG-INFO +1 -1
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/LICENSE +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/MANIFEST.in +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/README.md +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/setup.cfg +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/setup.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/__init__.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/align.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/bitools.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/cnv.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/decomp.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/deg.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/deiso.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/gatk.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/geq.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/load_datasets.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/mlbi_util.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/pybam.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/tasm.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool/util.py +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool.egg-info/SOURCES.txt +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool.egg-info/dependency_links.txt +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool.egg-info/requires.txt +0 -0
- {mlbi_bitool-0.2.3 → mlbi_bitool-0.2.4}/src/mlbi_bitool.egg-info/top_level.txt +0 -0
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@@ -6,7 +6,7 @@ build-backend = "setuptools.build_meta"
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[project]
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name = "mlbi-bitool"
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version = "0.2.
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version = "0.2.4"
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description = "Python interface to BioInfo tools for use in Google.Colab"
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readme = "README.md"
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authors = [{ name = "MLBI Lab", email = "syoon@dku.edu" }]
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@@ -228,7 +228,6 @@ apt_pkgs = {
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'samtools': ("samtools", "samtools", "samtools", _version_samtools),
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'featurecounts': ("featureCounts(subread)", "subread","featureCounts", _version_featureCounts),
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'stringtie': ("stringtie","stringtie","stringtie",_version_stringtie),
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'gffcompare': ("gffcompare", "gffcompare", "gffcompare", _version_gffcompare),
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'gffread': ("gffread", "gffread", "gffread", _version_gffread),
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'bcftools': ("bcftools", "bcftools", "bcftools", _version_bcftools),
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'tabix': ("tabix", "tabix", "tabix", _version_tabix),
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@@ -306,6 +305,7 @@ def _version_gatk(): return _probe_version(["gatk", "--version"])
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conda_pkgs = {
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'rmats': ('rmats.py', _version_rmats),
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'rsem': ('rsem-calculate-expression', _version_rsem),
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'gffcompare': ('gffcompare', _version_gffcompare),
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'ucsc_gtftogenepred': ('gtfToGenePred', _version_gtfToGenePred, 'ucsc-gtftogenepred'),
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'ucsc_genepredtobed': ('genePredToBed', _version_genePredToBed, 'ucsc-genepredtobed'),
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}
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@@ -317,7 +317,7 @@ other_pkgs = {
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BI_TOOL_PRESETS = {
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"wes": ["bwa", "samtools", "bcftools", "tabix", "bgzip", "gatk", "cnvkit"],
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"rnaseq": ["star", "samtools", "rsem", "salmon", "stringtie", "gffread", "rmats"],
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"rnaseq": ["star", "samtools", "rsem", "salmon", "stringtie", "gffcompare", "gffread", "rmats"],
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"ucsc_tools": ["ucsc_gtftogenepred", "ucsc_genepredtobed"],
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"pacbio": ["minimap2", "samtools", "stringtie", "gffcompare", "gffread",
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"ucsc_gtftogenepred", "ucsc_genepredtobed", "rmats"],
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