Söding Lab (soedinglab)

Söding Lab

soedinglab

Geek Repo

Quantitative and Computational Biology

Location:Goettingen, Germany

Home Page:https://mpinat.mpg.de/soeding

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Söding Lab's repositories

MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite

Language:CLicense:GPL-3.0Stargazers:1233Issues:30Issues:767

hh-suite

Remote protein homology detection suite.

Language:CLicense:GPL-3.0Stargazers:489Issues:24Issues:318

metaeuk

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

Language:CLicense:GPL-3.0Stargazers:165Issues:9Issues:85

plass

sensitive and precise assembly of short sequencing reads

Language:CLicense:GPL-3.0Stargazers:111Issues:11Issues:41

CCMpred

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

Language:CLicense:AGPL-3.0Stargazers:103Issues:12Issues:33

MMseqs2-App

MMseqs2 app to run on your workstation or servers

Language:VueLicense:GPL-3.0Stargazers:50Issues:7Issues:34

WIsH

Predict prokaryotic host for phage metagenomic sequences

Language:C++License:GPL-3.0Stargazers:48Issues:9Issues:5

spacedust

Discovery of conserved gene clusters in multiple genomes

Language:CLicense:GPL-3.0Stargazers:38Issues:7Issues:3

spacepharer

SpacePHARER CRISPR Spacer Phage-Host pAiRs findER

Language:CLicense:GPL-3.0Stargazers:33Issues:8Issues:13

prosstt

PRObabilistic Simulations of ScRNA-seq Tree-like Topologies

Language:PythonLicense:GPL-3.0Stargazers:25Issues:5Issues:5

pdbx

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

Language:HTMLLicense:AGPL-3.0Stargazers:19Issues:8Issues:8

merlot

Reconstruct the lineage topology of a scRNA-seq differentiation dataset.

Language:HTMLLicense:GPL-3.0Stargazers:18Issues:6Issues:7

b-lore

Bayesian multiple logistic regression for GWAS meta-analysis

Language:PythonLicense:GPL-3.0Stargazers:14Issues:6Issues:2

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.

Language:C++License:GPL-3.0Stargazers:10Issues:10Issues:14

tejaas

Tejaas - a tool for discovering trans-eQTLs

Language:CLicense:GPL-3.0Stargazers:9Issues:5Issues:7

hhdatabase_cif70

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

Language:ShellLicense:GPL-3.0Stargazers:6Issues:9Issues:2

CoCo

Consensus Correction

Language:C++License:GPL-3.0Stargazers:1Issues:6Issues:0

MMseqs2-Regression

MMseqs2 Regression Testing

Language:ShellLicense:GPL-3.0Stargazers:1Issues:9Issues:0

transannot

TransAnnot - a fast and all-in-one transcriptome annotation pipeline

Language:CLicense:GPL-3.0Stargazers:1Issues:4Issues:0

art_marzooplclk

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

Language:RLicense:MITStargazers:0Issues:4Issues:0

bipartite_motif_finder

BMF: Bipartite Motif Finder

Language:PythonLicense:GPL-3.0Stargazers:0Issues:8Issues:0

bmf-paper

Notebooks to reproduce the analyses in BMF manuscript

Language:Jupyter NotebookLicense:GPL-3.0Stargazers:0Issues:5Issues:0

bmf-webserver

Web server for Bipartite Motif Finder (BMF)

Language:PythonLicense:AGPL-3.0Stargazers:0Issues:5Issues:0

bamm-benchmark

Scripts and data for generating the benchmarks in the W Ge, et al. paper.

Language:Jupyter NotebookLicense:AGPL-3.0Stargazers:0Issues:7Issues:0

contactpred-felsenstein

Felsenstein implementation for phylogeny correction

Language:CLicense:GPL-3.0Stargazers:0Issues:6Issues:1
Language:PythonLicense:GPL-3.0Stargazers:0Issues:8Issues:0

hhdatabase_pfam

Scripts to generate the pfam database for hh-suite

Language:ShellStargazers:0Issues:7Issues:1

metaeuk-regression

Regression test suite for MetaEuk

Language:PerlLicense:GPL-3.0Stargazers:0Issues:6Issues:0