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@digenoma-lab

digenoma lab

The Di Genoma Lab is a research group that combine the development of new algorithms, genome analyses, and omic technologies to study complex biological systems
README.md

Di Genoma Lab

hi 👋! welcome to the Di genoma lab.

Short description

We are a Chilean-based research group that combines the development of new algorithms, genome analysis, and omics technologies to study complex biological systems.

Main Repositories

Genome Assembly

We have developped the following tools for de novo assembly of genomes:

  1. Wengan is an accurate and ultra-fast hybrid genome assembler.
  2. Fast-SG is an alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.

Cancer Genomics

We have developed, in conjunction with IARCbioinfo, the following workflows to study cancer genomes:

  1. purple-nf a nextflow pipeline for somatic Copy Number Variant calling with PURPLE.
  2. sv_somatic_cns consensus calling of Somatic structural variants from Paired WGS.
  3. ampliconarchitect-nf a nextflow pipeline to discover ecDNA on cancer genomes
  4. nf-gene-fusions a nextflow pipeline to call somatic mRNA fusions

Pinned Loading

  1. wengan wengan Public

    Forked from adigenova/wengan

    An accurate and ultra-fast hybrid genome assembler

    Perl

  2. fast-sg fast-sg Public

    Forked from adigenova/fast-sg

    Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.

    C++

Repositories

Showing 10 of 42 repositories
  • somatic_point_mutations Public

    call somatic point mutations from tumor/normal pairs

    digenoma-lab/somatic_point_mutations’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated May 21, 2024
  • nf-gene-fusions Public Forked from IARCbioinfo/gene-fusions-nf

    A nextflow pipeline to call somatic gene fusions

    digenoma-lab/nf-gene-fusions’s past year of commit activity
    Nextflow 0 MIT 1 0 0 Updated May 20, 2024
  • bam2cram Public Forked from IARCbioinfo/bam2cram-nf

    A repository to convert BAM->CRAM files

    digenoma-lab/bam2cram’s past year of commit activity
    Nextflow 1 MIT 1 0 0 Updated May 1, 2024
  • oncovirus Public

    prediction of somatic virus integration from WGS using hmftools

    digenoma-lab/oncovirus’s past year of commit activity
    0 MIT 0 0 0 Updated Apr 1, 2024
  • hic-scaffolding-nf Public Forked from WarrenLab/hic-scaffolding-nf

    Nextflow pipeline for scaffolding genome assemblies with Hi-C reads

    digenoma-lab/hic-scaffolding-nf’s past year of commit activity
    Nextflow 0 MIT 3 0 0 Updated Feb 11, 2024
  • call_snv Public

    A nextflow pipeline to call SNV from short-read sequences

    digenoma-lab/call_snv’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Jan 22, 2024
  • prok-annotate Public Forked from metashot/prok-annotate

    Annotation pipeline for prokaryotic genomes

    digenoma-lab/prok-annotate’s past year of commit activity
    Nextflow 0 GPL-3.0 2 0 0 Updated Jan 5, 2024
  • nf-ngscheckmate Public Forked from FredHutch/nf-ngscheckmate

    Nextflow workflow running NGScheckmate

    digenoma-lab/nf-ngscheckmate’s past year of commit activity
    Nextflow 0 1 0 0 Updated Dec 12, 2023
  • nf-bakta Public

    A Nextflow pipeline for the annotation of bacterial genomes or MAGs running Bakta

    digenoma-lab/nf-bakta’s past year of commit activity
    Nextflow 0 MIT 0 1 0 Updated Oct 28, 2023
  • nf-mag-depths Public
    digenoma-lab/nf-mag-depths’s past year of commit activity
    0 MIT 0 0 0 Updated Oct 24, 2023
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