Kai Blin

Login: kblin

Company: null

Location: null

Bio: Microbiology PhD, co-author of @antismash , Open Source geek.

Blog:

Blog:

Member of

1. antiSMASH
2. BioPerl
3. Worldforge

Repositories

2017-09-18-dtu-swc

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abyss

:microscope: De novo genome sequence assembler to assemble large genomes using short reads

aiodocker

Python Docker API client based on asyncio and aiohttp

aio-standalone

Standalone application server framework using asyncio

antismash

antiSMASH

around-the-world

Code to run the beaglebone-driven world map for Around the World in 80 Days

bioconda-recipes

Conda recipes for the bioconda channel.

bioinf-helperlibs

A library of bioinformatics-related helper functions

bioinf-packaging

Scripts used to package bioinformatics tools I care about for Debian(-like) systems

bioperl-hmmer3

BioPerl modules for HMMER3

bioperl-live

Core BioPerl code

bioperl-run

BioPerl wrappers

biopython

Official git repository for Biopython (converted from CVS)

blackbox_exporter

Blackbox prober exporter

blasr

BLASR: The PacBio® long read aligner

blog

Source files for my personal blog

c_fast5

C code to extract data from fast5 files

checkhost

Simple python-based host checker with Twitter notifcations

cleanup-files

A simple periodic file cleanup tool written in Go.

contorted

Automatically exported from code.google.com/p/contorted

cwl-antismash

First try wrapping antiSMASH in a Common Workflow Language description

diamond

Accelerated BLAST compatible local sequence aligner.

docker

Docker - the open-source application container engine

docker-debian

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drone-test

Test drone CI builds after drone broke again

fancy-prompt

An /etc/profile.d settings file creating a fancy prompt.

fancy-talk

Code to go along with my SambaXP18 talk

flask-downloader

Allow a Flask web app to download files on behalf of the user

foodstuff

A small web-app that manages recipes, plans meals and organizes the shopping list.

fungal-ui

A web UI for the fungal version of antiSMASH.

gc_split

Split sequences based on their GC content

genomedb-py

A tool to manage and use some metadata around NCBI GenBank genome files

github-paper

Plos in Computational Biology paper related with github for researchers, code, source and document

glimmerhmm

GlimmerHMM git repository

go-kkdcp

Go implementation of a Kerberos Key Distribution Center Proxy

go-ncbi-dl-service

A really simple NCBI sequence downloader microservice

gookbook

Recipe-serving REST API in go

GSoC

OBF Google Summer of Code

GSoC-SWAT

Samba Web Administration Tool Development

hubot-gsoc

Hubot-based chatbot for the GSoC channel

ipinfo

A small IP address echo server for use with a dynamic DNS change script.

jsbio

A collection of JavaScript functions for biology applications.

junk

Assorted code snippets

merge-gbk-records

Merge multiple GenBank records using a defined spacer sequence

mibig-api

The MIBiG API server

mockaioredis

Mock library to replace aioredis during unit tests

mockredis

mock for redis-py

ncbi-acc-download

Download files from NCBI Entrez by accession

ncbi-entrez-error-messages

A collection of error messages returned by NCBI Entrez

ncbi-genome-download

Scripts to download genomes from the NCBI FTP servers

Open-Advice

the Open-Advice book

patscanui

A comfortable web interface for PatScan

pelican-bootstrap3

Bootstrap 3 theme for Pelican

phdops

sources for the PhDOps blog

phycolo

Pyholgenetic Codon-based Localization of Gene Clusters

plunger

Automatically exported from code.google.com/p/plunger

py3-kkdcp

Python 3 asyncio Kerberos Key Distribution Center Proxy server

py-ncbi-dl-service

A really simple NCBI sequence downloader microservice

python-novice-biopython

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python-secmet

A Python library to handle secondary metabolite annotations

qunit

An easy-to-use JavaScript Unit Testing framework.

redis-model

Python ORM for Redis

redmine_latex_mathjax

A plugin to enable mathjax on redmine

reproducible-research-talk

A talk on reproducible research.

r-novice-analysis-viz

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rpi-cluster

Configuration for my RPi2 Cluster

rpi-ctdb-ansible

Ansible config for my RaspberryPi2 CTDB cluster setup

rpi-temp-monitor

1-wire temperature monitoring for the Raspberry Pi

rust-kkdcp

A Rust implementation of MS-KKDCP

sgrna-extract

Extract the variable part of sgRNAs from a longer sequence

shell-novice

Software Carpentry introduction to the shell for novices.

shortis

A small URL shortener built on top of Flask and Redis

spire

Search for Prokaryote Iron Response Elements

statusbot

A command-line to twitter tool I use to let my servers tweet their status.

supybot-gsoc

A collection of patches used to pimp gsocbot, the supybot of #gsoc

svgene

SVGene, an SVG gene cluster visualization library in JavaScript

swc-git-novice

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swc-shell-novice

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talloc-sys

Rust wrapper for the talloc library.

temp-alert

Read data from the rpi-temp-monitor website and send warning emails if some sensors report problems

training-prep-2015-09

Instructor training preparation, September 2015

Unicycler

hybrid assembly pipeline for bacterial genomes

vcflib

a simple C++ library for parsing and manipulating VCF files, + many command-line utilities

vim-fountain

A VIM syntax highlighting plugin for the Fountain screenplay format

vim-makegreen

MakeGreen runs make and shows a red or green message bar for success/failure. Speeds the red-green-refactor cycle!

weather-go

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wombatdb

Wombat Database Backend rewrite

Commits To