Pinned Repositories
empress
A fast and scalable phylogenetic tree viewer for microbiome data analysis
qurro
Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
airplanefood
what's the deal with differential abundance
mocha-headless-chrome
Run client-side mocha tests in the command line through headless Chrome.
poisson-cat
Compute poisson differentials based on categorical sample metadata
pyfastg
A minimal Python library for parsing SPAdes FASTG files
strainFlye
Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
wotplot
Small Python library for creating and visualizing dot plot matrices
MetagenomeScope
Visualization tool for (meta)genome assembly graphs
fedarko's Repositories
fedarko/strainFlye
Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
fedarko/pyfastg
A minimal Python library for parsing SPAdes FASTG files
fedarko/wotplot
Small Python library for creating and visualizing dot plot matrices
fedarko/sheepgut
Scripts, notebooks, figures, and other files used in our analyses for the strainFlye manuscript
fedarko/283-project
fedarko/aoc2023
Advent of Code 2023 solutions
fedarko/bioconda-recipes
Conda recipes for the bioconda channel.
fedarko/biom-format
The Biological Observation Matrix (BIOM) Format Project
fedarko/chezbob
fedarko/emperor
Emperor a tool for the analysis and visualization of large microbial ecology datasets
fedarko/empress
A very fast and scalable phylogenetic visualization viewer
fedarko/empress-analyses
fedarko/EukRep
Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
fedarko/fedarko.github.io
Personal website
fedarko/Flye
De novo assembler for single molecule sequencing reads using repeat graphs
fedarko/fortnite-burger
fedarko/hts-specs
Specifications of SAM/BAM and related high-throughput sequencing file formats
fedarko/improved-octo-waddle
Balanced parentheses succinct data structure in Python
fedarko/LJA
fedarko/MetagenomeScope-1
Web visualization tool for (meta)genome assembly graphs
fedarko/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
fedarko/networkx
Network Analysis in Python
fedarko/py-codacore
fedarko/q2view
A web-based "serverless" viewer of QIIME 2 Artifacts and Visualizations
fedarko/qurro
Visualize differentially ranked features (taxa, metabolites, ...) in tandem with log-ratios of their sample abundances
fedarko/qurro-feedstock
A conda-smithy repository for qurro.
fedarko/R-codacore
fedarko/sus-mode
fedarko/tokyo-drift
fedarko/understanding-cats.github.io
Team website