biology/py-hits 0.5.1 FreeBSD

Utilities for processing high-throughput sequencing experiments

System: FreeBSD
Repository: FreeBSD ports
Maintainer: [email protected]
License: GPLv3
Categories: biology, python
Package size: 1521.7 KiB, 7242.8 KiB installed

Description

hits is a suite of Python utilities designed for processing high-throughput sequencing experiments.

Key features include:

Tools for read name standardization
Sequence alignment
Data visualization

It is specifically tailored to handle experiments such as ribosome profiling (Ribo-seq) and RNA-seq, facilitating efficient data analysis and interpretation. The package streamlines the workflow from raw sequencing data to biological insights through robust processing pipelines.

In the other systems

System

Port

Version

FreeBSD

biology/py-hits

0.5.1

DragonFly

biology/py-hits

0.1_1

HardenedBSD

biology/py-hits

0.5.1

GhostBSD

biology/py-hits

0.5.1

Install

Binary package:

pkg install py312-hits

From the ports tree:

cd /usr/ports/biology/py-hits/ && make install clean

To depend on this port in another port's Makefile:

RUN_DEPENDS=	py312-hits>0:biology/py-hits

Packages

The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.

Repository

aarch64

amd64

armv6

armv7

i386

FreeBSD:14:latest

0.5.1

0.1

0.1_1

0.5.1

FreeBSD:14:quarterly

0.5.1

n/a

0.1_1

0.5.1

FreeBSD:15:latest

0.5.1

n/a

0.1_1

FreeBSD:15:quarterly

0.5.1

n/a

FreeBSD:16:latest

0.5.1

n/a

FreeBSD:16:quarterly

n/a

Dependencies

As this port's Makefile names them.

Build 2

${PYTHON_PKGNAMEPREFIX}setuptools-scm>0 : devel/py-setuptools-scm
${PYTHON_PKGNAMEPREFIX}wheel>0 : devel/py-wheel

Runtime 14

${PYTHON_PKGNAMEPREFIX}biopython>=1.72 : biology/py-biopython
${PYTHON_PKGNAMEPREFIX}bokeh>0 : www/py-bokeh
${PYTHON_PKGNAMEPREFIX}ipython>=7.8.0 : devel/ipython
${PYTHON_PKGNAMEPREFIX}ipywidgets>=7.4.2 : devel/py-ipywidgets
${PYTHON_PKGNAMEPREFIX}matplotlib>=3.0.2 : math/py-matplotlib
${PYTHON_PKGNAMEPREFIX}numpy>=1.15.4 : math/py-numpy
${PYTHON_PKGNAMEPREFIX}pandas>=0.23.4 : math/py-pandas
${PYTHON_PKGNAMEPREFIX}pillow>=5.3.0 : graphics/py-pillow
${PYTHON_PKGNAMEPREFIX}pysam>=0.15.1 : biology/py-pysam
${PYTHON_PKGNAMEPREFIX}pyyaml>=3.13 : devel/py-pyyaml
${PYTHON_PKGNAMEPREFIX}s3fs>=0 : filesystems/py-s3fs
${PYTHON_PKGNAMEPREFIX}scipy>=1.2.1 : science/py-scipy
${PYTHON_PKGNAMEPREFIX}seaborn>=0.11.0 : math/py-seaborn
${PYTHON_PKGNAMEPREFIX}statsmodels>=0.12.1 : math/py-statsmodels

The full lists below include those, and their dependencies in turn.

Build dependencies 18

Run dependencies 259

The first 100 are listed.

No port depends on this one.

Configuration

No options to configure.

USES: python
Service scripts: none

Files

distinfo 1

File

Size

SHA256

hits-0.5.1.tar.gz

1.90439e+06

4c10cf548708a0c64db9abaa551b8da60b994728cc1ecfd4ccfcab2829ac1300

Master sites 1

PYPI

Commit history 0

No commits in the history this site was built from.