Public datasets supporting Vidjil publications

We hereby give links to the data presented in our publications. We also recall that the source code can be freely downloaded, distributed and modified.

Alignment-free detection and seed-based identification of multi-loci V(D)J recombinations in Vidjil-algo

Reproducibility of the benchmarks

The Snakefile, Python scripts and README to reproduce the benchmark are available on this git repository.

Indexing labeled sequences

PeerJ Computer Science, 2018, 10.7717/peerj-cs.148

Code of the protype implementation (TL-index, TL-BW-index)

Genomic dataset of labeled DNA sequences with V(D)J recombinations

The dataset is a FASTA file. Labels are encoded in the FASTA header under the format label:start_position-end_position.

Vidjil: A web platform for analysis of high-throughput repertoire sequencing

PLOS ONE, 2016, doi:10.1371/journal.pone.0166126

Raw sequences files for Patients 063 (L3) and 125 (L4) are available below

Interactive visualization (demo/demo account): Patient L3, Patient L4

High-throughput sequencing in acute lymphoblastic leukemia: Follow-up of minimal residual disease and emergence of new clones

Leukemia Research, 2017, doi: 10.1016/j.leukres.2016.11.009

Interactive visualization of the 11 patients

Raw files for Patient 063 (L3)

Multi-loci diagnosis of acute lymphoblastic leukaemia with high-throughput sequencing and bioinformatics analysis

British Journal of Haematology, 2016, doi:10.1111/bjh.13981

Interactive visualization of the 32 patients

Raw files for Patient 125 (L4)