Cornelius Roemer

desh-data. Sequence lineage information extracted from RKI sequence data repo

pango_aliasor. Utility to alias and dealias pango lineages

pango-sequences. Consensus sequences for each Pango lineage

pango-designation-dates. Contains dates on which each Pango lineage was designated

MutantenPrognose. Covid Prognosen für Deutschland

ncov-simplest. Python

covspectrum-jupyter. Make interactive plots from covSpectrum data

autovpn. Automatically connect to Cisco Anyconnect VPN from CLI

rki-plots. Plots of Covid case numbers according to German public health institute

fasta_zstd_sqlite. Efficiently store FASTA sequences in sqlite compressed with sidecar zstd dictionary

Morsify. Kotlin

bioconda-sync-monitor. Python

nwkfmt. Formatting newick trees for manual editing

awesome-snakemake. A list of awesome snakemake resources

mpxv-lapis-lineage-tree. Making LAPIS lineage tree config file from lineages repository

sc2-clade-alerts. Alert about new SARS-CoV-2 clade designations

custom-docker. Example of customizing Nextstrain's Docker image

issue-search. Better Github Issue Search

hck. A sharp cut(1) clone.

sdow. Six Degrees of Wikipedia

silask.github.io. Lua

pipx. Install and Run Python Applications in Isolated Environments

hyper. A terminal built on web technologies

rki-abwasser-reports. Easy to view version of RKI SARS-CoV-2 wastewater surveillance reports

tldr. 📚 Collaborative cheatsheets for console commands

nextstrain-deploy. Deploy nextstrain builds from local/staging to staging/production

nextclade-full-run. Python

seqkit. A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

compression_benchmark. Benchmarking fastq compression with generic (mature) compression algorithms

snakemake-boilerplate. Boilerplate for Snakemake workflow

covariants. Scripts to investigate the SUKS cluster