Lejzerowicz's repositories
metagenomix
A pipeline of pipelines to conduct metagenomic analyses on Slurm/Torque
mistag_filter
Metabarcoding sequence abundance filter for projects involving combinations of short tagged primers for the labeling of amplicons and samples multiplexing
microbiome_analyzer
Command line tool that writes commands to run one by one to perform analyses (mainly using qiime2) on a HPC running Slurm, Torque or none of these.
Xclusion_criteria
Generate interactive, user-defined visualisations to help defining inclusion/exclusion criteria on a metadata table
evaluate_dada2
Explore various trim lengths to fit one or more mock sample(s)
FranckLejzerowicz.github.io
Personal website for Franck Lejzerowicz
microsetta-interface
The Microsetta participant facing user interface
MIDAS2
Metagenomic Intra-Species Diversity Analysis 2
polyGs_stats
count reads and polyGs and get the motifs before the Gs
prep_songbird
Generate scripts for QIIME2's songbird to run multinomial regression models defined in a config file, for many datasets, subsets, filtering version, and run parameters, including train-test columns and baselines
scikit-bio
scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.
songbird
Vanilla regression methods for microbiome differential abundance analysis
woltka
Web of Life Toolkit App
Xhpc
Convert of .sh script into Torque's .pbs or Slurm's script for use on a computer cluster with intel or gpu nodes
XMCA
Perform MCA analysis from metadata and obtain and interactive html plot, including variables selection and samples descriptions
Xmmvec
Explore mmvec ranks results
Xphate
Explore PHATE results
Xplor_distros
Explore the distributions of the continuous data in your metadata file that you may want to analyse jointly.
Xpress_parse
Help a user or a group of users to semi-automatically parse and select (and label) papers searched on Web Of Science based on their abstracts.
Xsinfo
Summarize nodes and cores available for compute on a SLURM scheduler
Xsourcetracking
Run FEAST, sourcetracker2 or ML classification for a features table, metadata and metadata column's sink (and sources) to help identifying most likely features origin and curate sample labeling
Xtensorboard
to create a tunnel job for inspect tensorboard
Xvert_docstring_plain2np
Convert docstring fro plain 2 NumPy format