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get_jgi_genomes
A quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.jsPhyloSVG
genomics_adventure
Workshop on Genomics - Genomics Adventuretaxdump_edit
π± β‘οΈ π³ Add new taxa or taxonomic groups to the NCBI Taxdump filesorthomcl_tools
A couple of tools I find indispensable for post orthomcl down-stream analysis.gene_prediction_pipeline
Gene Prediction using MAKER, CEGMA, SNAP, GENEMARK & AUGUSTUSsagawe
βͺ β‘οΈ π βΉοΈ A suggested workflow, and accompanying scripts, to assemble Single Amplified Genomes (SAGs) from MDA derived Hi/MiSeq (Overlapped) Paired-End Illumina Libraries.busco_hmms_for_anvio
Making BUSCO HMMs useable in Anvi'o.refgen
A time-saving tool to change the 'defline' of FASTA files for a range of phylogenetic programs e.g. ClustalX, MrBayes, PhyMLget_ensembl_genomes
A quick and easy way to download the genomes/predicted proteins of taxa available from ENSEMBL Genomesorthagogue
Automatically exported from code.google.com/p/orthagoguerandom_scripts
A collection of random scripts I have made over the years, barely any documentation though. Enjoy, be careful!fdfBLAST
evomics_2017
Creating the AMI for the evomics.org Workshopsgenome_crossovers
Which genomes are where in the big DBs?blastocladiella
The genome of Blastocladiella emersoniievomics_2019
Creating the Virtual Machine (AMI) for the evomics.org Workshopstreenamer
Reddit-Perl-API
A simple Perl API to query Redditmarine_fungi
Accompanying files for Identification of 71 marine fungal lineages using diversity tag sequencing 2015, In prep.taxa_autocorrect
A tool to 'automagically' italicise taxon names, compiled from 839 taxa sampled from NCBI, DOE JGI and BROAD. Currently MS Word onlyeasyRAx
The script aims to make execution of RAxML a little easier by use of simple command-line menus and some user input.orchard
π± π β‘οΈ π± β‘οΈ π΄ π² π³ - A quick phylogenetic tree building pipeline!Love Open Source and this site? Check out how you can help us