GATB programming day — Paris — pre-RECOMB-seq April 18 2018

Warning : Inscription deadline April 11 2018 !

there are still a few places left


GATB-Core is a modern c++/11 library that natively provides high-performance and memory-efficient operations to handle Fasta/Fastq files, k-mers, bloom filters and de Bruijn graphs.

Learning GATB-Core API (Application Programming Interface) is the purpose of this programming day: to provide you with theoretical concepts and corresponding code snippets to design and write GATB tools.

Date & Location: April 18th, 2018 – Univ Jussieu, Paris, France

Language: English

Registration: This event is free but we request participants to register by filling in this very short form.

Program of the day

9:30 am – Welcome coffee
09:45 – 11:15 am
– A theoretical introduction to GATB: the basic concepts
– GATB-Core practical coding session 1: I/O operations on read files

11:15 am – Coffee break

11:30 – 12:30 am
– The GATB de Bruijn graph API

12:30 – Lunch (at the discretion of the participants)

2:00-3:30 pm
– GATB-Core practical coding session 2: k-mer and graph APIs in action
– GATB-Core practical coding session 3: writing a short local assembly tool

3:30 pm – Coffee break

– pyGATB: the Python wrapper for GATB
– Q&A session: obtain answers from GATB experts

5:30 pm – end of the day


  • some c++ programming skills are required; this is mostly to enable you to directly understand the GATB API
  • your personal computer (the tutorial room does not provide any computer), with linux or MacOs system, with gatb-core installed (installation instructions will be sent to participants by email a few days before the training day).


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