Understand the NCBI database and to do request using entrez and Rentrez
This project permits to check the specificity of already designed primers.
Useful information about Rana temporaria genome and mitogenome. RADseq digestion, choices of restriction enzyme, RNA probe design
This project is based on the idea that gathering similar sequences allows to faithfully study them by eliminating sequences generated from PCR or NGS errors.
This project presents a pipeline based on OBITools commands in order to eliminate sequences interpreted as coming from PCR errors and to assign each remaining sequence to a taxon thanks to a reference database.
This project has for goal to filtrate efficiently eDNA sequences after PCR amplification and NGS, in order to eliminate the false sequences generated by these technologies.
The first step to begin with obitools and Bash
Data for the tutorial on how to analyze DNA metabarcoding data produced on Illumina sequencers
Check WGS data
DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE
Tool to parse and summarize VFC files with different plots
OTU clustering with SWARM on RAPIDRUN data encapsulated in SNAKEMAKE
Simulations of metabarcoding data from fish 12S Teleo1
Comparison of multiple bioinformatic programs for each step of eDNA analysis
Some basic tests to check websites :