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bioconda-recipes

Conda recipes for the bioconda channel.

bluegenes.github.io

A responsive Jekyll theme with clean typography and support for large full page images.

cephalopods-are-awesome

a random cephalopod fact generator

cgm-remote-monitor

nightscout web monitor

count-ribo-pfam

dahak-eel-pond

working dir for project to turn updated eel pond protocols into a dahak-style containerized workflow

dammit

just annotate it, dammit!

deepchem_book

working through the deep learning exercises

evolve_reseq

Scripts for Evolve & Resequence project

fasta_tools

glympsed

gtotree

A user-friendly workflow for phylogenomics

kgml

Python code to parse, manipulate, download, and visualise KGML (KEGG markup language) biological pathway data.

khmer

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

kmerdecoder

Extract kmers, skipmers, minimizers.

lowphox

scripts for D. opalescens lowpHOx project

makemytranscriptome

assemble, annotate, and assess transcriptomes in a single step

misc_scripts

misc scripts of questionable utility to others

mutation-rate-ci-calculator

This software calculates a confidence interval for the mutation rate from a set of observed containment indices under a simple nucleotide mutation process.

ncbi-genome-download

Scripts to download genomes from the NCBI FTP servers

nf-predictorthologs

*de novo* orthologous gene predictions from bam + bed or fasta/fastq data

orpheum

Orpheum (Previously called and published under sencha) is a Python package for directly translating RNA-seq reads into coding protein sequence.

oyster_river_protocol

Official Repository of the Oyster River Protocol for Transcriptome Assembly

pb-metagenomics-tools

pb-metagenomics-tools

phylogenetic-tree-using-fracminhash

planets

proposals

repeatability

Scripts for repeatability paper

required-kmers-from-scale-factor

Computes the required number of kmers given a scale factor so that the resulting FracMinHash sketch does not have a large bias

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2