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New port: biology/py-loompy: Work with .loom files for single-cell RN…
…A-seq data
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# $FreeBSD$ | ||
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PORTNAME= loompy | ||
DISTVERSION= 2.0.14 | ||
CATEGORIES= biology python | ||
MASTER_SITES= CHEESESHOP | ||
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} | ||
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MAINTAINER= yuri@FreeBSD.org | ||
COMMENT= Work with .loom files for single-cell RNA-seq data | ||
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LICENSE= BSD2CLAUSE | ||
LICENSE_FILE= ${WRKSRC}/LICENSE | ||
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RUN_DEPENDS= ${PYNUMPY} \ | ||
${PYTHON_PKGNAMEPREFIX}h5py>0:science/py-h5py@${PY_FLAVOR} \ | ||
${PYTHON_PKGNAMEPREFIX}pandas>0:math/py-pandas@${PY_FLAVOR} \ | ||
${PYTHON_PKGNAMEPREFIX}scipy>0:science/py-scipy@${PY_FLAVOR} | ||
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USES= python:3.6+ | ||
USE_PYTHON= distutils autoplist | ||
NO_ARCH= yes | ||
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.include <bsd.port.mk> |
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TIMESTAMP = 1537516516 | ||
SHA256 (loompy-2.0.14.tar.gz) = 9ffc5e717d7932d72f80a301bef3a9a8d62b84ecf379c4b1ffd750f6b1388e88 | ||
SIZE (loompy-2.0.14.tar.gz) = 30942 |
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Loom is an efficient file format for large omics datasets. Loom files contain | ||
a main matrix, optional additional layers, a variable number of row and column | ||
annotations, and sparse graph objects. Under the hood, Loom files are HDF5 and | ||
can be opened from many programming languages, including Python, R, C, C++, | ||
Java, MATLAB, Mathematica, and Julia. | ||
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Key features: | ||
* Single file that can be moved around | ||
* Metadata travels with the main data | ||
* Data, clustering, layout, annotation stored together | ||
* Efficient random access | ||
* Automatic, on-the-fly compression | ||
* Out-of-memory data processing | ||
* Open source, BSD license | ||
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WWW: https://loompy.org/ |