notbugAs an Amazon Associate I earn from qualifying purchases.
Want a good read? Try FreeBSD Mastery: Jails (IT Mastery Book 15)
Port details
py-deeptools User-friendly tools for exploring deep-sequencing data
3.5.1 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2021-10-14 11:57:05
Last Update: 2021-10-14 11:51:12
Commit Hash: 799d4cc
Also Listed In: python
License: BSD3CLAUSE
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
There is no configure plist information for this port.
Dependency lines:
  • ${PYTHON_PKGNAMEPREFIX}deepTools>0:biology/py-deeptools@${PY_FLAVOR}
To install the port:
cd /usr/ports/biology/py-deeptools/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/py-deeptools
  • pkg install py38-deepTools
NOTE: This is a Python port. Instead of py38-deepTools listed in the above command, you can pick from the names under the Packages section.
PKGNAME: py38-deepTools
Package flavors (<flavor>: <package>)
  • py38: py38-deepTools
distinfo:
Packages (timestamps in pop-ups are UTC):
py38-deepTools
ABIlatestquarterly
FreeBSD:11:aarch64--
FreeBSD:11:amd64--
FreeBSD:11:armv6--
FreeBSD:11:i386--
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch64--
FreeBSD:12:amd643.5.1-
FreeBSD:12:armv6--
FreeBSD:12:armv7--
FreeBSD:12:i3863.5.1-
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64--
FreeBSD:13:aarch64--
FreeBSD:13:amd643.5.1-
FreeBSD:13:armv6--
FreeBSD:13:armv7--
FreeBSD:13:i3863.5.1-
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64--
FreeBSD:14:aarch64--
FreeBSD:14:amd64--
FreeBSD:14:armv6--
FreeBSD:14:armv7--
FreeBSD:14:i386--
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc64--
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. py38-setuptools>0 : devel/py-setuptools@py38
  2. python3.8 : lang/python38
Runtime dependencies:
  1. py38-numpy>=1.16,1<1.20,1 : math/py-numpy@py38
  2. py38-scipy>=0.17.0 : science/py-scipy@py38
  3. py38-matplotlib>=3.3.0 : math/py-matplotlib@py38
  4. py38-pysam>=0.14.0 : biology/py-pysam@py38
  5. py38-py2bit>=0.3.0 : biology/py-py2bit@py38
  6. py38-numpydoc>=0.5 : textproc/py-numpydoc@py38
  7. py38-pyBigWig>=0.3.18 : biology/py-pybigwig@py38
  8. py38-plotly>=4.9 : graphics/py-plotly@py38
  9. py38-deeptoolsintervals>=0.1.8 : biology/py-deeptoolsintervals@py38
  10. py38-setuptools>0 : devel/py-setuptools@py38
  11. python3.8 : lang/python38
This port is required by:
for Run
  1. biology/biostar-tools

Configuration Options:
Options name:

USES:

FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (2 items)
Collapse this list.
  1. https://files.pythonhosted.org/packages/source/d/deepTools/
  2. https://pypi.org/packages/source/d/deepTools/
Collapse this list.

Number of commits found: 1

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
14 Oct 2021 11:51:12
 files touched by this commit commit hash:799d4cc2cfd1c343f486afbde5cc735ec206de2e  3.5.1
Jason W. Bacon (jwb) search for other commits by this committer
biology/py-deeptools: User-friendly tools for exploring deep-sequencing data

deepTools contains useful modules to process the mapped reads data for
multiple quality checks, creating normalized coverage files in standard
bedGraph and bigWig file formats, that allow comparison between
different files (for example, treatment and control). Finally, using
such normalized and standardized files, deepTools can create many
publication-ready visualizations to identify enrichments and for
functional annotations of the genome.

Number of commits found: 1