Söding Lab

MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite

hh-suite

Remote protein homology detection suite.

metaeuk

MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics

plass

sensitive and precise assembly of short sequencing reads

CCMpred

Protein Residue-Residue Contacts from Correlated Mutations predicted quickly and accurately.

spacedust

Discovery of conserved gene clusters in multiple genomes

MMseqs2-App

MMseqs2 app to run on your workstation or servers

WIsH

Predict prokaryotic host for phage metagenomic sequences

spacepharer

SpacePHARER CRISPR Spacer Phage-Host pAiRs findER

pdbx

pdbx is a parser module in python for structures of the protein data bank in the mmcif format

prosstt

PRObabilistic Simulations of ScRNA-seq Tree-like Topologies

CCMgen

b-lore

Bayesian multiple logistic regression for GWAS meta-analysis

transannot

TransAnnot - a fast transcriptome annotation pipeline

BaMMmotif2

Bayesian Markov Model motif discovery tool version 2 - An expectation maximization algorithm for the de novo discovery of enriched motifs as modelled by higher-order Markov models.

tejaas

Tejaas - a tool for discovering trans-eQTLs

hhdatabase_cif70

Scripts to generate the pdb70 database for hh-suite on the basis of pdb's mmcif format

binning_benchmarking

McDevol

PMGen

peptide-MHC modeling, binding prediction, and protein design.

bipartite_motif_finder

BMF: Bipartite Motif Finder

CoCo

Consensus Correction

MMseqs2-Regression

MMseqs2 Regression Testing

art_marzooplclk

Accompanying repository for the publication "RNA sequencing indicates widespread conservation of circadian clocks in marine zooplankton"

bmf-paper

Notebooks to reproduce the analyses in BMF manuscript

bmf-webserver

Web server for Bipartite Motif Finder (BMF)

cooperative_rbp

contactpred-felsenstein

Felsenstein implementation for phylogeny correction

hhdatabase_pfam

Scripts to generate the pfam database for hh-suite

metaeuk-regression

Regression test suite for MetaEuk