AlexPersa7's repositories
canu
A single molecule sequence assembler for genomes large and small.
get_phylomarkers
A pipeline to select optimal markers for microbial phylogenomics, population genetics and genomic taxonomy
SynNet-Pipeline
Workflow for Building Microsynteny Networks
graphlayouts
new layout algorithms for network visualizations in R
goatools
Python scripts to find enrichment of GO terms
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
get_homologues
GET_HOMOLOGUES: a versatile software package for pan-genome analysis
deepsignal
Detecting methylation using signal-level features from Nanopore sequencing reads
gganimate
A Grammar of Animated Graphics
DeepMod
DeepMod: a deep-learning tool for genomic-scale, strand-sensitive and single-nucleotide based detection of DNA modifications
FGMP
Fungal Genome Mapping Pipeline
ggforce
Accelerating ggplot2
metagenomics_workflows
Workflows for metagenomic sequence data processing and analysis.
proovread
PacBio hybrid error correction through iterative short read consensus
sra-tools
SRA Tools
Filtlong
quality filtering tool for long reads
pantools
PanTools
wtdbg2
A fuzzy Bruijn graph approach to long noisy reads assembly
pipeline-transcriptome-de
Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
patchwork
The Composer of ggplots
FunGAP
FunGAP: fungal Genome Annotation Pipeline
Comparative_Genomics
Micro 612 genomics workshop
ggraph
Grammar of Graph Graphics
GenoDup-Pipeline
This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.
flappie
Flip-flop basecaller for Oxford Nanopore reads
Easyfig
Development version of Easyfig
mummer
Mummer alignment tool
appliedgenomics2018
Materials for Spring 2018 Applied Genomics Course
sspace_basic
SSPACE Basic, SSAKE-based Scaffolding of Pre-Assembled Contigs after Extension
pyPaSWAS
Program for DNA/RNA/protein sequence alignment, read mapping and trimming. Extended python version of PaSWAS, supporting OpenCL and CUDA devices.