martinjvickers Goto Github PK

3dsimtiff

Read a 16bit 31channel 3dsimTIFF image

aionplot

A complete web platform for visualizing and disseminating time series data

alfsc_old

Alignment-Free Sequence Comparison

aligner-data

alphabet_order

b3

Biodiversity Genomics Academy 2023: Gene prediction with BRAKER3

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

bioinformatics_munging

Simple data "munges" to get certain things done.

bismark

A tool to map bisulfite converted sequence reads and determine cytosine methylation states

cloudpool_testing

Messing around with cloudpool

containers

Bioinformatics containers

cudasw4

CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search

cuff_diff_2_xiao_score

Implementation of Xiao., Y. 2014. A novel significance score for gene selection and ranking.

cuffdiff2edger

Perl Script to convert CUFFDIFF output for use with edgeR and Trinity DE analysis

d2-tools

This is a backup of https://code.google.com/archive/p/d2-tools/

datastructures_for_gff

Some Datastructures for solving problems when working with very large GFF files.

diffbam

A program to comprehensively compare several BAM files

dismiss-galaxy

DISMISS is an R script, which as an additional step in MeDIP-Seq data analysis workflow, enables the allocation of strands to methylated DNA regions. It does this by analyzing the proportions of first mate reads aligning to the methylated locus from the plus and minus strands.

docker-lachesis

Docker Image for the Lachesis Hi-C Scaffolder

dzlab-tools

Mirror of Daniel Zilberman Lab's bioinformatics tools

expvip-ansible

Ansible script for provisining expVIP

fastq_finder

A program to quickly search the first read header of a fastq file to match an instrument ID and a run number

fixed_length_trimmer

Trim a fastq or fastq.gz file to a fixed length

globalmlbuildingfootprints

Worldwide building footprints derived from satellite imagery

hmmlib

forf from HMMlib at http://www.cs.au.dk/~asand/?page_id=152

home_monitoring

My Various scripts for home monitoring

install_scripts

Once a SysAdmin, always a SysAdmin. Scripts for installing software

jellyfish

A fast multi-threaded k-mer counter

kast

Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.

kast_docker

docker image for kast