ctSkennerton/khmer
in-memory k-mer counting
Developer Profile
ctSkennerton
Discovered public repositories for ctSkennerton in the GitHub catalog.
ctSkennerton/16S-rRNA-orientation
reverse complement 16S rRNA genes so that they are always in the correct orientation
ctSkennerton/CheckM
Beta check your meta before you wreck your meta
ctSkennerton/language-perl
Perl package for Atom
ctSkennerton/bioperl-live
Core BioPerl 1.x code
ctSkennerton/conditional-highlighter
highlight tables like excel's conditional formatting
ctSkennerton/util
Utilities for c programming
ctSkennerton/aho-corasick
A-C implementation in "C". Tight-packed (interleaved) state transition matrix -- as fast as it gets, as small as it gets.
ctSkennerton/klib
A standalone and lightweight C library
ctSkennerton/minced
Mining CRISPRs in Environmental Datasets
ctSkennerton/ctSkennerton.github.io
Public repository.
ctSkennerton/bioawk
BWK awk modified for biological data
ctSkennerton/prepmate
processing mate-pair data from Illumina's nextera protocol
ctSkennerton/nextclip
Nextera Long Mate Pair analysis and processing tool
ctSkennerton/styles
Official repository for Citation Style Language (CSL) citation styles.
ctSkennerton/heatmapper
heatmapper
ctSkennerton/fxtract
Extract sequences from a fastx file given a subsequence or identifier
ctSkennerton/profile2value
Convert a descriptive profile into a single value between 0 -> 1 using PCA
ctSkennerton/PyVCF
A Variant Call Format reader for Python.
ctSkennerton/BioGraPy
Biological Graphic tool in Python
ctSkennerton/bam2fpkc
Abundance profile construction for contigs or bins
ctSkennerton/pywumanber
Python bindings and utilities created with ctypes for wrapping a C implementation of the Wu Manber search algorithm
ctSkennerton/pycogent
PyCogent: Official repository for software and unit tests
ctSkennerton/Amplishot
microbial community profiling using amplicon-shotgun sequencing
ctSkennerton/GenomeTreeDatabase
Genome Tree Database
ctSkennerton/SimpleHMMER
Super simple wrapper for running hmmer3 and parsing the output
ctSkennerton/sam2amos
convert a sam file into an AMOS message or bank
ctSkennerton/ionPairer
create a rough scaffold using ion torrent MP reads
ctSkennerton/libcrispr
A small library for dealing with .crispr files
ctSkennerton/bbbin
A collection of working and non-working bioinformatics scripts
ctSkennerton/templates
A set of GPL templates which make coding more funner!
ctSkennerton/env
Public repository.
ctSkennerton/fagrep
search through Fasta and Fastq files as fast as grep (because it is)
ctSkennerton/crisprtools
small utilities for manipulating .crispr files
ctSkennerton/Fastx
A simple Fastx(Fasta/Fastq) class that allows reading and writing to and from streams. Most of the code is untested, just been writing it for my own knowledge
ctSkennerton/crass
The CRISPR assembler
ctSkennerton/scriptShed
sequence manipulation scripts accumulated over the years. Some may not work anymore.
ctSkennerton/keggVIZ
Visualization of KEGG pathways from genomic/metagenomic samples