12 skills found
hiyama341 / Teemiteemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, design libraries, and track samples. Open-source Python platform for workflow flexibility and automated tasks, accelerating metabolic engineering. Try teemi with our Google Colab notebooks!
leylabmpi / SynTrackerSynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.
ohlab / SMEGStrain-level Metagenomic Estimation of Growth rate (SMEG) measures growth rates of microbial strains from complex metagenomic dataset
bdaisley / IsolateRAutomated processing of Sanger sequencing data, taxonomic profiling, and generation of microbial strain libraries
FischbachLab / NinjaMapCompute strain abundance in a defined microbial community
wshuai294 / PStrainPstrain profiles strains in metagenomics data. It infers strain abundance and genotype for each species. Also, it has a single species mode; where given a BAM and VCF, it can phase the variants for any species.
DW-Group / T2D Microbiome Meta AnalysisGut Microbial Signatures and Strain-Specific Functions in Type 2 Diabetes Revealed by a Cross-Cohort Analysis of 8,123 Metagenomes
biosustain / Growth Coupling SuiteA constraint-based metabolic model-based workflow for computing and analyzing microbial strain designs which couple a target reaction to growth
SligoMicrobe / MicrobeMomScripts used in the analysis of the paper looking at microbial strain transmission between mothers and infants
Fraunhofer-ITMP / AMR KGA knowledge graph of experimental drug data for anti-microbial resistant strains.
LeibnizDSMZ / Microbial Data StandardData standard for cultured microbial strains
CZLaboratory / SyntheticMicrobialCommunitiesMicrobial communities were rationally assembled as bioproduction platforms. The metabolic models of a sucrose-secreting Synechococcus elongatus, two strains of Escherichia coli, Yarrowia lipolytica, and Bacillus subtilis were paired in phototroph-heterotroph combinations. Funding NSF and DOE
