MEB team from LMGE (UMR CNRS 6023) (@meb-team)
Guthub

meb-team

Twitter logo Share LinkedIn logo Share Facebook logo Share
  • Stars
    star
    9
  • Global Org. Rank 162,564 (Top 52 %)
  • Registered about 7 years ago
  • Most used languages
    Perl
         20.0 %
    Prolog
         20.0 %
    HTML
         20.0 %
    Shell
         20.0 %
    R
         20.0 %

Top repositories

1

PlasSuite

Scripts for plasmidome analysis
Shell
5
star
2

MICROSTORE_MetaT-MetaB_Monjot_2023

Workflow to reproduce analysis conduced in Monjot et al., 2023
R
1
star
3

AccNetPhylA

This Perl script AccNetPhylA (Accessory Constellation Network with Phylogenetic Analysis) takes up most of the analysis of AccNET (Accessory Constellation Network) (Val F. Lanza et al., 2016) by replacing the clustering tool kClust (Hauser et al., 2013) with CD-HIT (Weizhong Li et al., 2001) for analysis with nucleotide and protein sequences. "AccNET is a comparative genomic tool for accessory genome analysis using bipartite networks. The software has been designed to be compatible with most of the Network Analysis software (i.e. Cytoscape, Gephi or R)."
Perl
1
star
4

MetaPathExplorer

MetaPathExplorer is a pipeline for analyzing and visualizing KEGG pathway maps (Kanehisa et al., 2002). These pathways are produced from high quality reads or contigs/scaffolds (metagenomes or SCs) or proteins.
HTML
1
star
5

HpC_to_vehicle

The perl script HpC_to_vehicle retrieves the results of the perl script AccNetPhylA (files to visualize the networks, multiple alignment of Muscle, phylogenetic results of PHYLIP, ...) to create HpC (Homologous protein Cluster) and GU (Genomic Unit), to thus make different networks representing the links between "vehicles" of genes or proteins. For each vehicle, there are two types of graphs: -network between vehicles that can belong to the same GU -network between different GU vehicles For gene vehicle analysis, a patristic distance (calculated from tree branch lengths describe the amount of genetic change represented by a tree) will be used to build two more graphs. In the end, there will be 4 networks resulting from an analysis with the genes and 2 from an analysis with the proteins.
Prolog
1
star