Alistair Miles

Login: alimanfoo

Company: University of Oxford

Location: null

Bio: Biologist hacker.

Blog: http://alimanfoo.github.io

Blog: http://alimanfoo.github.io

Member of

  1. MalariaGEN
  2. Zarr Developers
  3. null

Repositories

ag1000g-phase2-data-paper
Repo for building a data descriptor paper for the Ag1000G phase 2 resource.
agam-kilifi-report-2017
null
agam-vgsc-report
Report on genetic variation within the voltage-gated sodium channel gene in Anopheles gambiae
alimanfoo.github.io
Alistair Miles' blog
Analysis-of-Genetic-Variation-with-Python
A rough guide to the analysis of genetic variation with Python
anhima
Analyse genetic variation.
bcolz
A columnar data container that can be compressed.
bcolz-feedstock
A conda-smithy repository for bcolz.
biipy
Docker image for bioinformatics analysis.
bioconda-recipes
Conda recipes for the bioconda channel.
csvvalidator
A small CSV validator library for Python.
dask-feedstock
A conda-smithy repository for dask.
ete
ETE is a Python programming toolkit for building, comparing, annotating, manipulating and visualising trees. It provides both a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.
fasteners-feedstock
A conda-smithy repository for fasteners.
hmmcnv
Examples and utilities for calling copy number variations (CNVs) from high throughput sequence data using a hidden Markov model (HMM)
lookseq
lookseq
monotonic-feedstock
A conda-smithy repository for monotonic.
numcodecs-feedstock
A conda-smithy repository for numcodecs.
octopus
Bayesian haplotype-based mutation calling
panoptes
Eyes on your (genomic) data
petl
Python Extract Transform and Load Tables of Data
petl-feedstock
A conda-smithy repository for petl.
petlx
Optional extensions for petl based on third party libraries.
pysamstats
A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.
pytables-feedstock
A conda-smithy repository for pytables.
PyVCF
A Variant Call Format reader for Python.
pyvcfarray
Python utility functions for loading data from Variant Call Format (VCF) files into numpy arrays.
scikit-allel-feedstock
A conda-smithy repository for scikit-allel.
seaborn
Statistical data visualization using matplotlib
smithwaterman
smith-waterman-gotoh alignment algorithm
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
vcflib
a simple C++ library for parsing and manipulating VCF files
vcfnp
Load numpy arrays and HDF5 files from VCF (variant call format)
vcfplt
Convenient plotting functions for working with variant call data.
vcf-validator
Validator for VCF implemented using C++11
veff
variant effect prediction
xray
Extended arrays for working with scientific datasets in Python. http://xray.readthedocs.org
zarr-feedstock
A conda-smithy repository for zarr.

Commits To

RepositoryMost Recent Commit# Commits
cggh/biipy2017-01-31 10:30:36.0120

This work is supported by the National Institutes of Health's National Center for Advancing Translational Sciences, Grant Number U24TR002306. This work is solely the responsibility of the creators and does not necessarily represent the official views of the National Institutes of Health.