Pinned Repositories
alphabet_order
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
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.
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.
kmer_counter
K-Mer counter using TBB and all of your RAM!
SLURM-cheat-sheet
Cheat sheet for interacting with the SLURM scheulder
xftools
Tools developed for use in Xiaoqi Feng's lab.
martinjvickers's Repositories
martinjvickers/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.
martinjvickers/xftools
Tools developed for use in Xiaoqi Feng's lab.
martinjvickers/SLURM-cheat-sheet
Cheat sheet for interacting with the SLURM scheulder
martinjvickers/aionplot
A complete web platform for visualizing and disseminating time series data
martinjvickers/B3
Biodiversity Genomics Academy 2023: Gene prediction with BRAKER3
martinjvickers/bioinformatics_munging
Simple data "munges" to get certain things done.
martinjvickers/cloudpool_testing
Messing around with cloudpool
martinjvickers/containers
Bioinformatics containers
martinjvickers/CUDASW4
CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search
martinjvickers/d2-tools
This is a backup of https://code.google.com/archive/p/d2-tools/
martinjvickers/docker-lachesis
Docker Image for the Lachesis Hi-C Scaffolder
martinjvickers/expvip-ansible
Ansible script for provisining expVIP
martinjvickers/GlobalMLBuildingFootprints
Worldwide building footprints derived from satellite imagery
martinjvickers/install_scripts
Once a SysAdmin, always a SysAdmin. Scripts for installing software
martinjvickers/Jellyfish
A fast multi-threaded k-mer counter
martinjvickers/KAST_docker
docker image for kast
martinjvickers/KAST_figures
Data and scripts for KAST figures
martinjvickers/kmer_search
Given a fastq/fasta file, return kmer counts from KMC3 database
martinjvickers/LSPone-Controller
Software to control a Laboratory syringe pump
martinjvickers/martinjvickers
Config files for my GitHub profile.
martinjvickers/miniature-sniffle-mapper
martinjvickers/my_aweseome_analysis
stuff i did on thursday
martinjvickers/pyBigWig
A python extension for quick access to bigWig and bigBed files
martinjvickers/RagTag
Tools for fast and flexible genome assembly scaffolding and improvement
martinjvickers/Red
Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
martinjvickers/reduced_alphabet
A small program to explore reduced alphabet alignment free comparisons
martinjvickers/SmartThingsPublic
SmartThings open-source DeviceTypeHandlers and SmartApps code
martinjvickers/thermal_parser
FLIR/DJI IR Camera Data Parser, Python Version
martinjvickers/VerticalPhotoPlacer
A free open source plugin for QGIS that performs quick placement of vertical drone photos on map.
martinjvickers/website
Lab Website