AlexPersa7's repositories
megahit
MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
diamond
Accelerated BLAST compatible local sequence aligner.
pyScaf
Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.
Augustus
Genome annotation with AUGUSTUS
pilon
Pilon is an automated genome assembly improvement and variant detection tool
R_for_biologists
Scripts and data for Plotting in R for Biologists, a video course on YouTube
wgd
Python package and CLI for whole genome duplication analysis
nanopolish
Signal-level algorithms for MinION data
Porechop
adapter trimmer for Oxford Nanopore reads
minion_qc
Quality control for MinION sequencing data
Deepbinner
a signal-level demultiplexer for Oxford Nanopore reads
bedtools2
A powerful toolset for genome arithmetic.
GWA_tutorial
A comprehensive tutorial about GWAS and PRS
Scaffold_builder
Combining de novo and reference-guided assembly with Scaffold_builder
dynGENIE3
Semi-parametric approach for the inference of gene regulatory networks from time series of expression data
qqman
An R package for creating Q-Q and manhattan plots from GWAS results
progressiveCactus
Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
NINJA-OPS
Ninja Is Not Just Another OTU Picking Solution
Prodigal
Prodigal Gene Prediction Software
appliedgenomics2017
JHU EN.600.649: Computational Genomics: Applied Comparative Genomics
d3heatmap
A D3.js-based heatmap htmlwidget for R
SC_workshop_NWU26-27
This is the repository for the statistical analysis in R part of the Software Carpentry workshop taking place and the NWU 25-28 October 2017
smartdenovo
Ultra-fast de novo assembler using long noisy reads
TULIP
TULIP - The Uncorrected Long read Itegration Pipeline
jmodeltest2
Automatically exported from code.google.com/p/jmodeltest2
Bioinformatics-Training
Bioinformatics training resources
jcvi
Python utility libraries on genome assembly, annotation and comparative genomics
multi-metagenome
Scripts and tutorials on how to assemble individual microbial genomes from metagenomes