Pinned Repositories
Bismark
A tool to map bisulfite converted sequence reads and determine cytosine methylation states
Bowtie
Cookbook for installing Bowtie, an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers. http://bowtie-bio.sourceforge.net/
bwa-meth
align BS-Seq reads and extract methylation without intermediate temp files
celery
Distributed Task Queue (development branch)
celery-tutorial
chef-continuum-anaconda
Chef cookbook for Continuum Analytic's Anaconda: "completely free Python distribution for large-scale data processing, predictive analytics, and scientific computing"
cutadapt
cutadapt removes adapter sequences from high-throughput sequencing data. This is usually necessary when the read length of the sequencing machine is longer than the molecule that is sequenced, for example when sequencing microRNAs.
django-rest-tutorial
swingingsimian's Repositories
swingingsimian/celery
Distributed Task Queue (development branch)
swingingsimian/Bismark
A tool to map bisulfite converted sequence reads and determine cytosine methylation states
swingingsimian/Bowtie
Cookbook for installing Bowtie, an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers. http://bowtie-bio.sourceforge.net/
swingingsimian/bwa-meth
align BS-Seq reads and extract methylation without intermediate temp files
swingingsimian/celery-tutorial
swingingsimian/chef-continuum-anaconda
Chef cookbook for Continuum Analytic's Anaconda: "completely free Python distribution for large-scale data processing, predictive analytics, and scientific computing"
swingingsimian/cutadapt
cutadapt removes adapter sequences from high-throughput sequencing data. This is usually necessary when the read length of the sequencing machine is longer than the molecule that is sequenced, for example when sequencing microRNAs.
swingingsimian/django-rest-tutorial
swingingsimian/ensembl
The Ensembl Core Perl API and SQL schema
swingingsimian/ensembl-production
Ensembl Production code
swingingsimian/EpiExplorer
EpiExplorer is a web tool that allows you to use large reference epigenome datasets for your own analysis without complex scripting or laborous preprocessing.
swingingsimian/fastapi-utils
Reusable utilities for FastAPI
swingingsimian/globomantics
swingingsimian/h5serv
Reference service implementation of the HDF5 REST API
swingingsimian/nodejs_noodling
Noodling with Node.js
swingingsimian/pact_playing
swingingsimian/picard
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
swingingsimian/pluralsight-working-with-components-in-react18
pluralsight-working-with-components-in-react18
swingingsimian/ps-react-fundamentals
swingingsimian/public-plugins
Plugins for an Ensembl website
swingingsimian/pyinstaller-template
Simple example of pyinstaller usage including package directory an exe build
swingingsimian/pysam
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
swingingsimian/QualiMap
Evaluating next generation sequencing alignment data
swingingsimian/Samtools
Cookbook for installing Samtools, a suite of programs for interacting with high-throughput sequencing data.
swingingsimian/sanic-swagger-ui
Swagger UI blueprint for sanic
swingingsimian/shmig
Database migration tool written in BASH.
swingingsimian/TrimGalore
This cookbook installs TrimGalore: A wrapper tool around Cutadapt and FastQC to consistently apply quality and adapter trimming to FastQ files, with some extra functionality for MspI-digested RRBS-type (Reduced Representation Bisufite-Seq) libraries.
swingingsimian/TypeScript-Getting-Started
Official repo for the "TypeScript: Getting Started" course on Pluralsight.
swingingsimian/wait-for
./wait-for is a script to wait for another service to become available.
swingingsimian/WiggleDB
Genomic data exploration webtool