Package List
APScheduler-3.3.1 In-process task scheduler with Cron-like capabilitiesBabel-2.4.0 Internationalization utilitiesCNVkit-0.8.5 Copy number variation toolkit for high-throughput sequencing.ConfigArgParse-0.11.0 A drop-in replacement for argparse that allows options to also be set via config files and/or environment variables.Cycler-0.10.0 Composable style cyclesCython-0.25.2 The Cython compiler for writing C extensions for the Python language.Flask-0.12.1 A simple framework for building complex web applications.Flask-Bootstrap-3.3.7.1 An extension that includes Bootstrap in your project, without any boilerplate code.Flask-Debug-0.4.3 Shows reflection/configuration to aid the development of Flask applications.Flask-Migrate-2.0.3 SQLAlchemy database migrations for Flask applications using AlembicFlask-SQLAlchemy-2.2 Adds SQLAlchemy support to your Flask applicationFlask-Script-2.0.5 Scripting support for FlaskFlask-WTF-0.14.2 Simple integration of Flask and WTForms.GitPython-2.1.3 Python Git LibraryHTSeq-0.7.2 A framework to process and analyze data from high-throughput sequencing (HTS) assaysImmuneDB-0.19.0 A system for the analysis and exploration of high-throughput adaptive immune receptor sequencing dataJinja2-2.9.6 A small but fast and easy to use stand-alone template engine written in pure python.Mako-1.0.6 A super-fast templating language that borrows the best ideas from the existing templating languages.Markdown-2.6.8 Python implementation of Markdown.MySQL-python-1.2.5 Python interface to MySQLNuitka-0.5.25 Python compiler with full language support and CPython compatibilityPrettyTable-0.7.2 A simple Python library for easily displaying tabular data in a visually appealing ASCII table format.PyClone 0.12.9
PyDP 0.2.2
PyInstaller-3.2.1 PyInstaller bundles a Python application and all its dependencies into a single package.PyMySQL-0.7.10 Pure Python MySQL DriverPyVCF-0.6.8 Variant Call Format (VCF) parser for PythonPyYAML-3.12 YAML parser and emitter for PythonPygments-2.2.0 Pygments is a syntax highlighting package written in Python.SQLAlchemy-1.1.9 Database Abstraction LibraryTheano-0.9.0 Optimizing compiler for evaluating mathematical expressions on CPUs and GPUs.WTForms-2.1 A flexible forms validation and rendering library for Python web development.alnvu-0.1.0 Reformat and condense multiple sequence alignments to highlight variabilityansible-2.2.1.0 Radically simple IT automationappdirs-1.4.3 A small Python module for determining appropriate platform-specific dirs, e.g. a “user data dir”.argparse-1.4.0 Python command-line parsing libraryastroid-1.4.9 A abstract syntax tree for Python with inference support.awscli-1.11.73 Universal Command Line Environment for AWS.backports.shutil_get_terminal_size-1.0.0 A backport of the get_terminal_size function from Python 3.3’s shutil.bcbio-gff-0.6.4 Read and write Generic Feature Format (GFF) with Biopython integration.beautifulsoup4-4.5.3 Screen-scraping librarybiopython-1.68 Freely available tools for computational molecular biology.bitstring-3.1.5 Simple construction, analysis and modification of binary data.bokeh-0.12.5 Interactive plots and applications in the browser from Pythonboto3-1.4.4 The AWS SDK for Pythonbrewer2mpl-1.4.1 Connect colorbrewer2.org color maps to Python and matplotlibcertifi-2017.1.23 Python package for providing Mozilla’s CA Bundle.cliff-2.5.0 Command Line Interface Formulation Frameworkcmd2-0.7.0 cmd2 - a tool for building interactive command line applications in Pythoncpv-0.46 combine p-valuescruzdb-0.5.6 Interface to UCSC genomic databases.
Also allows things like up/downstream/k-nearest-neighbor queries and mirroring
of tables to local sqlite databasescryptography-1.8.1 cryptography is a package which provides cryptographic recipes and primitives to Python developers.cutadapt-1.13 trim adapters from high-throughput sequencing readsdarkslide-2.3.3 Lightweight markup language-based html5 slideshow generator. Forked from Landslide.deap-1.0.2 Distributed Evolutionary Algorithms in Pythondebtcollector-1.13.0 A collection of Python deprecation patterns and strategies that help you collect your technical debt in a non-destructive manner.decorator-4.0.11 Better living through Python with decoratorsdeepTools-2.5.0.1 Useful tools for exploring deep sequencing datadeprecation-1.0 A library to handle automated deprecationsdocutils-0.13.1 Docutils – Python Documentation Utilitiesdrmaa-0.7.7 a python DRMAA libraryeasygui-0.98.1 EasyGUI is a module for very simple, very easy GUI programming in Python. EasyGUI is different from other GUI generators in that EasyGUI is NOT event-driven. Instead, all GUI interactions are invoked by simple function calls.ecdsa-0.13 ECDSA cryptographic signature library (pure python)enum34-1.1.6 Python 3.4 Enum backported to 3.3, 3.2, 3.1, 2.7, 2.6, 2.5, and 2.4fasteners-0.14.1 A python package that provides useful locks.flask-appconfig-0.11.1 Configures Flask applications in a canonical way. Also auto-configures Heroku. Aims to standardize configuration.flask-nav-0.6 Easily create navigation for Flask applications.freezer-4.0.0 The OpenStack Backup Restore and Disaster Recovery as a Service Platformfuncsigs-1.0.2 Python function signatures from PEP362 for Python 2.6, 2.7 and 3.2+functools32-3.2.3-2 Backport of the functools module from Python 3.2.3 for use on 2.7 and PyPy.futures-3.0.5 Backport of the concurrent.futures package from Python 3gitdb2-2.0.0 Git Object Databasegoogle-1.9.3 Python bindings to the Google search engine.h5py-2.7.0 Read and write HDF5 files from Pythonhtml5lib-0.999999999 HTML parser based on the WHATWG HTML specificationipython_genutils-0.2.0 Vestigial utilities from IPythoniso8601-0.1.11 Simple module to parse ISO 8601 datesjellyfish-0.5.6 a library for doing approximate and phonetic matching of strings.keystoneauth1-2.19.0 Authentication Library for OpenStack Identityldap3-2.2.2 A strictly RFC 4510 conforming LDAP V3 pure Python client libraryliac-arff-2.1.0 A module for read and write ARFF files in Python.lockfile-0.12.2 Platform-independent file locking modulelxml-3.7.3 Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API.matplotlib-2.0.0 Python plotting packagemessytables-0.15.2 Parse messy tabular data in various formatsmincemeat-0.1.4 UNKNOWNmisopy-0.5.3 Mixture of Isoforms model (MISO) for isoform quantitation using RNA-Seqmock-2.0.0 Rolling backport of unittest.mock for all Pythonsmonotonic-1.3 An implementation of time.monotonic() for Python 2 & < 3.3mpi4py-2.0.0 Python bindings for MPImsgpack-python-0.4.8 MessagePack (de)serializer.ndg-httpsclient-0.4.2 Provides enhanced HTTPS support for httplib and urllib2 using PyOpenSSLnetCDF4-1.2.7 Provides an object-oriented python interface to the netCDF version 4 library.netaddr-0.7.19 A network address manipulation library for Pythonnetifaces-0.10.5 Portable network interface information.nose-1.3.7 nose extends unittest to make testing easiernpyscreen-4.10.5 Writing user interfaces without all that ugly mucking about in hyperspacenumpy-1.12.1 NumPy: array processing for numbers, strings, records, and objects.oauth-1.0.1 Library for OAuth version 1.0a.openstacksdk-0.9.14 An SDK for building applications to work with OpenStackos-client-config-1.26.0 OpenStack Client Configuation Libraryosc-lib-1.3.0 OpenStackClient Libraryoslo.concurrency-3.20.0 Oslo Concurrency libraryoslo.config-3.24.0 Oslo Configuration APIoslo.context-2.13.0 Oslo Context libraryoslo.i18n-3.15.0 Oslo i18n libraryoslo.log-3.23.0 oslo.log libraryoslo.serialization-2.18.0 Oslo Serialization libraryoslo.utils-3.25.0 Oslo Utility librarypackaging-16.8 Core utilities for Python packagespandas-0.19.2 Powerful data structures for data analysis, time series, and statisticsparamiko-2.1.2 SSH2 protocol librarypathlib2-2.2.1 Object-oriented filesystem pathspaycheck-1.0.2 A Python QuickCheck implementationpbr-2.0.0 Python Build Reasonablenesspep8-1.7.0 Python style guide checkerpickleshare-0.7.4 Tiny ‘shelve’-like database with concurrency supportpip-9.0.1 The PyPA recommended tool for installing Python packages.positional-1.1.1 Library to enforce positional or key-word arguments (deprecated/unmaintained)prompt_toolkit-1.0.14 Library for building powerful interactive command lines in Pythonpsutil-5.2.1 Cross-platform lib for process and system monitoring in Python.psycopg2-2.7.1 psycopg2 - Python-PostgreSQL Database AdapterpyBigWig-0.3.4 A package for accessing bigWig files using libBigWigpyOpenSSL-16.2.0 Python wrapper module around the OpenSSL librarypyasn1-0.2.3 ASN.1 types and codecspyastro-1.1 Astronomical Librarypycrypto-2.6.1 Cryptographic modules for Python.pycurl-7.43.0 PycURL – A Python Interface To The cURL librarypyensembl-1.1.0 Python interface to ensembl reference genome metadatapygithub3-0.5.1 Python wrapper for the github v3 apipyinotify-0.9.6 Linux filesystem events monitoringpymongo-3.4.0 Python driver for MongoDB http://www.mongodb.org pymssql-2.1.3 DB-API interface to Microsoft SQL Server for Python. (new Cython-based version)pypandoc-1.3.3 Thin wrapper for pandoc.pyparsing-2.2.0 Python parsing modulepysam-0.10.0 pysampython-cinderclient-2.0.1 OpenStack Block Storage API Client Librarypython-dateutil-2.6.0 Extensions to the standard Python datetime modulepython-freezerclient-1.3.0 OpenStack Disaster Recovery API Client Librarypython-glanceclient-2.6.0 OpenStack Image API Client Librarypython-keystoneclient-3.10.0 Client Library for OpenStack Identitypython-memcached-1.58 Pure python memcached clientpython-novaclient-8.0.0 Client library for OpenStack Compute APIpython-openstackclient-3.9.0 OpenStack Command-line Clientpython-pam-1.8.2 Python PAM module using ctypes, py3/py2python-swiftclient-3.3.0 OpenStack Object Storage API Client Librarypytz-2017.2 World timezone definitions, modern and historicalqiime-1.9.1 Quantitative Insights Into Microbial Ecologyqrcode-5.3 QR Code image generatorrequests-2.13.0 Python HTTP for Humans.requestsexceptions-1.2.0 Import exceptions from potentially bundled packages in requests.rfc3986-0.4.1 Validating URI References per RFC 3986rpy2-2.8.5 Python interface to the R language (embedded R)scikit-learn-0.18.1 A set of python modules for machine learning and data miningscipy-0.19.0 SciPy: Scientific Library for Pythonseqmagick-0.6.1 Tools for converting and modifying sequence files from the command-linesetuptools-34.3.3 Easily download, build, install, upgrade, and uninstall Python packagesshove-0.6.6 Generic dictionaryish object storage frontendsimplegeneric-0.8.1 Simple generic functions (similar to Python’s own len(), pickle.dump(), etc.)simplejson-3.10.0 Simple, fast, extensible JSON encoder/decoder for Pythonsix-1.10.0 Python 2 and 3 compatibility utilitiesslurm-pipeline-1.1.1 A Python class for scheduling SLURM jobssmmap2-2.0.1 A pure python implementation of a sliding window memory map managerstevedore-1.21.0 Manage dynamic plugins for Python applicationstoil-3.7.0a1.dev384 Pipeline management software for clusters.toolshed-0.4.6 Tools for datatraitlets-4.3.2 Traitlets Python config systemtwobitreader-3.1.4 A fast python package for reading .2bit files (used by the UCSC genome browser)tzlocal-1.3 tzinfo object for the local timezoneunicodecsv-0.14.1 Python2’s stdlib csv module is nice, but it doesn’t support unicode. This module is a drop-in replacement which does .uritemplate-3.0.0 URI templatesurwid-1.3.1 A full-featured console (xterm et al.) user interface libraryvctools-0.1.6.1 A set of tools for interacting with the VMware vCloud API, whether on vCloud Air or locally installed.virtualenv-15.1.0 Virtual Python Environment builderwarlock-1.3.0 Python object model built on JSON schema and JSON patch.watchdog-0.8.3 Filesystem events monitoringwrapt-1.10.10 Module for decorators, wrappers and monkey patching.
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