Nicola Soranzo

Login: nsoranzo

Company: @TGAC

Location: Norwich, UK

Bio: null

Blog:

Blog:

Member of

1. Earlham Institute
2. Galaxy Project
3. Intergalactic Utilities Commission

Repositories

2017-12-01-antarctica

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abyss

de novo sequence assembler

autoconf-feedstock

A conda-smithy repository for autoconf.

automake-feedstock

A conda-smithy repository for automake.

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

bioblend

A python library for interacting with CloudMan and Galaxy API

bioblend-tutorial

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bioconda-recipes

Conda recipes for the bioconda channel.

bioconda-utils

Utilities for building and managing bioconda recipes

bison-feedstock

A conda-smithy repository for bison.

bowtie2

A fast and sensitive gapped read aligner

bwa

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

bwa-meth

fast and accurate alignment of BS-Seq reads

bx-python

Tools for manipulating biological data, particularly multiple sequence alignments

cargo-port

cache packages permanently

ChromosomeMappings

This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.

cloudbridge

A consistent interface to multiple clouds; in Python.

cmd2

cmd2 - Quickly build feature-rich and user-friendly interactive command line applications in Python

conda-build

Commands and tools for building conda packages

conda-iuc

Conda recipes maintained by the Galaxy IUC.

configparser-feedstock

A conda-smithy repository for configparser.

curl-feedstock

A conda-smithy repository for curl.

dagobah-training

Galaxy admin trainings for aspiring Skywalkers

earlham-galaxytools

Galaxy tools developed at TGAC

flake8-import-order

Flake8 plugin that checks import order against various Python Style Guides

freebayes

Bayesian haplotype-based polymorphism discovery and genotyping.

galaxy

Data intensive biology for everyone.

galaxy_blast

Galaxy wrappers for the NCBI BLAST+ tools

galaxy-hub

Galaxy project website, aka Galaxy Community Hub

GalaxyKickStart

Ansible playbooks for Galaxy Server deployment

galaxy-lib

Subset of Galaxy (http://galaxyproject.org/) core code designed to be used as a library.

galaxy-maps

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galaxyproject.github.io

Informational repository, highlighting the code offerings of Galaxyproject

galaxytools

Galaxy Tool wrappers

gedit-restore-tabs

Restore documents that were left open between sessions.

git-novice

Software Carpentry introduction to Git for novices.

gops

Galaxy Operations Python Package

hcluster

My git clone of Heng Li's hcluster from http://sourceforge.net/p/treesoft/code/HEAD/tree/branches/lh3/

isa-rwval

Read/write/validation packages for the ISA tools API

kggseq_archive

KGGSeq archive

lsf-drmaa

null

minced

Mining CRISPRs in Environmental Datasets

nosehtml

HTML Output plugin for Nose / Nosetests

openbabel

Open Babel is a chemical toolbox designed to speak the many languages of chemical data.

p4

Proper Prior Planning Prevents Poorly Performed PRs

peps

Python Enhancement Proposals

picard

A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.

planemo

Command-line utilities to assist in developing tools for the Galaxy project.

planets

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prokka

Rapid prokaryotic genome annotation

pybel

A Python package for parsing, validating, and analysis of of BEL graphs

pycodestyle

Simple Python style checker in one Python file

pysam

Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

python-genomespaceclient

A Python client for the GenomeSpace API

python-novice-inflammation

Software Carpentry introduction to Python for novices using inflammation data.

readthedocs.org

source code to readthedocs.org

requests

Python HTTP Requests for Humans?

r-hash-feedstock

A conda-smithy repository for r-hash.

sailfish

Rapid Mapping-based Isoform Quantification from RNA-Seq Reads

sed-feedstock

A conda-smithy repository for sed.

sequence_utils

Galaxy's sequence utilities are a set of Python modules for reading, analyzing, and converting sequence formats.

shell-novice

Software Carpentry introduction to the shell for novices.

sickle

Windowed Adaptive Trimming for fastq files using quality

six

Python 2 and 3 compatibility library

slurm-drmaa

DRMAA for Slurm imported from PSNC SVN

sortmerna

This is ongoing development of SortMeRNA. See 'release' on this page for releases or visit http://bioinfo.lifl.fr/RNA/sortmerna/ for more information.

sqlalchemy-utils

Various utility functions and datatypes for SQLAlchemy.

sspace_basic

SSPACE Basic, SSAKE-based Scaffolding of Pre-Assembled Contigs after Extension

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

standards

Documentation for standards and best practices from the Galaxy IUC

starforge

Build Galaxy dependencies, wheels, and other things, in Docker (and other things)

stringtie

Transcript assembly and quantification for RNA-Seq

targetscan

Unofficial fork of TargetScan - Prediction of microRNA targets

texinfo-feedstock

A conda-smithy repository for texinfo.

texlive-core-feedstock

A conda-smithy repository for texlive-core.

tools-devteam

Repository encapsulating a set of Galaxy tools mostly written by the Galaxy Team.

tools-galaxyp

Galaxy Tool Shed repositories maintained and developed by the GalaxyP community

tools-iuc

Tool Shed repositories maintained and developed by the Intergalactic Utilities Commission

training-material

A collection of training material from offered Galaxy courses

Commits To