xapple

Bioinformatics consulting, Data Science, DevOps

Sinclair.BioPost-geographic consultant

Pinned Repositories

cbmcfs3_runner
`cbmcfs3_runner` is a python package for dealing with the automation and running of a complex series of models involving the European economy, carbon budgets and their interactions. Notably in relation to the CBM-CFS3 model developed by Canada.
Language:Python2 4 00
crest4
The `crest4` python package can automatically assign taxonomic names to DNA sequences obtained from environmental sequencing.
Language:Python5 3 80
fasta
This package enables you to deal with biological sequence files easily.
Language:Python7 2 14
forest_puller
This python package lets you automatically download and parse european forest data from several different public sources.
Language:Python4 3 00
libcbm_runner
`libcbm_runner` is a python package for automating simulations of forest growth and harvesting involving the European economy, carbon budgets and their interactions.
Language:Python3 4 00
pbs3
Python process launching (that works on Windows and Python 3)
Language:Python3 2 00
plumbing
Helps with plumbing-type programing in python.
Language:Python5 3 23
seqenv
Assign environment ontology (EnvO) terms to DNA sequences
Language:Python8 7 75
track
Provides easy read/write access to genomic tracks
Language:Python22 6 53
waste_flow
A package for retrieving and analyzing data concerning waste management on the European continent.
Language:Python4 3 40

xapple's Repositories

xapple/track
Provides easy read/write access to genomic tracks
Language:Python22 6 53
xapple/seqenv
Assign environment ontology (EnvO) terms to DNA sequences
Language:Python8 7 75
xapple/fasta
This package enables you to deal with biological sequence files easily.
Language:Python7 2 14
xapple/crest4
The `crest4` python package can automatically assign taxonomic names to DNA sequences obtained from environmental sequencing.
Language:Python5 3 80
xapple/plumbing
Helps with plumbing-type programing in python.
Language:Python5 3 23
xapple/forest_puller
This python package lets you automatically download and parse european forest data from several different public sources.
Language:Python4 3 00
xapple/waste_flow
A package for retrieving and analyzing data concerning waste management on the European continent.
Language:Python4 3 40
xapple/libcbm_runner
`libcbm_runner` is a python package for automating simulations of forest growth and harvesting involving the European economy, carbon budgets and their interactions.
Language:Python3 4 00
xapple/pbs3
Python process launching (that works on Windows and Python 3)
Language:Python3 2 00
xapple/cbmcfs3_runner
`cbmcfs3_runner` is a python package for dealing with the automation and running of a complex series of models involving the European economy, carbon budgets and their interactions. Notably in relation to the CBM-CFS3 model developed by Canada.
Language:Python2 4 00
xapple/pacmill
The `pacmill` python package is a bioinformatics pipeline that is developed to process microbial 16S amplicon sequencing data and produce PDF reports detailing taxonomical assignments along with other statistics.
Language:Python2 1 00
xapple/pydirdiff
This tool compares two directories recursively and prints any differences.
Language:Python2 2 01
xapple/seqsearch
Sequence similarity searches (e.g. BLAST) made easy
Language:Python2 2 01
xapple/autopaths
autopaths is a python package for dealing with file paths and automation.
Language:Python1 2 12
xapple/gefes
Genome Extraction From Environmental Sequencing
Language:Python1 3 00
xapple/optmagic
This project enables you to create simple command line interfaces starting with a class or a function that you want to expose directly to the shell.
Language:Python1 2 0
xapple/ld12
Analysis of the LD12 genomes and the freshwater genomes for the "Tuning fresh" paper
Language:Python0 3 00
xapple/python_ebc_2016
Material for the python course to be held at EBC in 2016
Language:Python0 4 07
xapple/bumphub
Scripts to automate distribution and packaging of python modules on PyPI and conda
Language:Python3 0
xapple/crest4_utils
Utilities and scripts usefull for the developement of `crest4`
Language:Python3 1
xapple/genomes
Easy access to meta data about genome assemblies
Language:Python2 0
xapple/libcbm_py
Carbon budget model library based on CBM-CFS3
Language:Python1 0
xapple/puller_cache
A repository to revision control some of the smaller files contained in the cache of the `forest_puller` project.
Language:TeX2 0
xapple/pymarktex
Will convert a markdown text file to a fancy PDF document.
Language:Python2 02
xapple/pyrotrfid
This project is a pipeline to perform digital TRFLP.
Language:Python2 01
xapple/python_homework
A repository to contain exercices and homework for the Python EBC 2016 course
2 017
xapple/q2-crest4
This is a QIIME 2 plugin for taxonomic classification of sequences
2 0
xapple/sifes
Pipeline for 16S microbial environmental sequencing
Language:Python2 0
xapple/sinclair.bio
The website with a jekyll theme
Language:JavaScript2 0