Pinned Repositories
amptk
AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
augustus
AUGUSTUS v3.2.1 for installation on Mac OS X
buscolite
BUSCOlite: simplified conserved marker gene prediction for genome annotation
funannotate
Eukaryotic Genome Annotation Pipeline
funannotate2
Eukaryotic genome annotation software.
gapmm2
gapmm2: gapped alignment using minimap2 (align transcripts to genome)
gene2product
Curated list of gene names and product descriptions that pass NCBI genome submission rules.
genome_scripts
collection of random scripts for processing genome related files. the shell scripts are specific to my environment and may not work elsewhere.
gfftk
GFF toolkit
redmask
Genome assembly soft-masking using Red (REpeat Detector)
nextgenusfs's Repositories
nextgenusfs/funannotate
Eukaryotic Genome Annotation Pipeline
nextgenusfs/amptk
AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
nextgenusfs/redmask
Genome assembly soft-masking using Red (REpeat Detector)
nextgenusfs/augustus
AUGUSTUS v3.2.1 for installation on Mac OS X
nextgenusfs/genome_scripts
collection of random scripts for processing genome related files. the shell scripts are specific to my environment and may not work elsewhere.
nextgenusfs/funannotate2
Eukaryotic genome annotation software.
nextgenusfs/gene2product
Curated list of gene names and product descriptions that pass NCBI genome submission rules.
nextgenusfs/gfftk
GFF toolkit
nextgenusfs/buscolite
BUSCOlite: simplified conserved marker gene prediction for genome annotation
nextgenusfs/gapmm2
gapmm2: gapped alignment using minimap2 (align transcripts to genome)
nextgenusfs/funannotate-paper
Scripts used in funannotate manuscript
nextgenusfs/mhc_cluster
Scripts to process MHC DRB2 next-gen sequencing data
nextgenusfs/phyloma
Phylogeny using Marker-gene Analysis
nextgenusfs/bioconda-recipes
Conda recipes for the bioconda channel.
nextgenusfs/dockerized-augustus
Augustus gene prediction software running in docker
nextgenusfs/dockerized-genemark
Docker version of gene prediction software GeneMark
nextgenusfs/dw
dw is a docker wrapper bash script
nextgenusfs/eggnog-mapper
Fast genome-wide functional annotation through orthology assignment
nextgenusfs/FAC-assembly
Scripts for assembly of PE Illumina from pooled BAC/FACs
nextgenusfs/FUNGuild
FUNGuild: parsing OTUs into functional guilds
nextgenusfs/helixerlite
simplified prediction using Helixer for genome annotation
nextgenusfs/homebrew-tap
local homebrew tap
nextgenusfs/isONclust
De novo clustering of long transcript reads into genes
nextgenusfs/lr-asm
Long read genome assembly scripts
nextgenusfs/medaka
Sequence correction provided by ONT Research
nextgenusfs/nextgenusfs.github.io
nextgenusfs/notebooks
nextgenusfs/PASApipeline
PASA software
nextgenusfs/pipeline-umi-amplicon
Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
nextgenusfs/pyspoa
Python bindings to spoa