Package: wnpp
Severity: wishlist
Subject: ITP: python-loompy -- access loom formatted files for bioinformatics
Package: wnpp
Owner: Steffen Moeller
Severity: wishlist
* Package name: python-loompy
Version : 2.0.17
Upstream Author : Linnarsson Lab
* URL : https://github.com/linnarsson-lab/loompy
* License : BSD-2-Clause
Programming Lang: Python
Description : access loom formatted files for bioinformatics
Loom is an efficient file format for very large omics datasets,
consisting of a main matrix, optional additional layers, a variable
number of row and column annotations. Loom also supports sparse
graphs. We use loom files to store single-cell gene expression data:
the main matrix contains the actual expression values (one column per
cell, one row per gene); row and column annotations contain metadata
for genes and cells, such as Name, Chromosome, Position (for genes),
and Strain, Sex, Age (for cells).
.
Loom files (.loom) are created in the HDF5 file format, which supports
an internal collection of numerical multidimensional datasets. HDF5
is supported by many computer languages, including Java, MATLAB,
Mathematica, Python, R, and Julia. .loom files are accessible from any
language that supports HDF5.
Remark: This package is maintained by Steffen Moeller at
https://salsa.debian.org/med-team/python-loompy
