Christophe Klopp
@cklopp66.bsky.social
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Chef de projet en bioinformatique. Intéressé par l'assemblage et l'annotation de génomes
reposted by
Christophe Klopp
Francois Sabot
about 2 months ago
With many colleagues, we tried to gather the future prospects and challenges for
#Pangenomics
and
#Pangenome
research in agronomy, that can however be adopted more largely
hal.science/hal-05357866/
@ird-fr.bsky.social
@inrae-france.bsky.social
#FAIR
#OpenScience
#vizu
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dgenies.toulouse.inra.fr
monthly jobs by job size. Interesting to see that the 5 to 200Mb genome sizes are less represented in the queries.
8 months ago
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You need help to select the best genome assembler? Check the updated version of
www.biorxiv.org/content/10.1...
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Benchmarking long-read genome assemblers for three sequencing protocols and three agricultural species
Today, long read technologies make it possible to produce telomere-to-telomere genome assemblies. These assemblies permit more accurate whole genome analyses, including on repeated regions. The genome...
https://www.biorxiv.org/content/10.1101/2025.02.14.638238v3
9 months ago
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Happy to share our latest preprint on autopolyploid genome assembly
www.biorxiv.org/content/10.1...
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Improving hifiasm haplotypes for autopolyploid genome assemblies using constraint programming
Actual versions of hifiasm often produce unbalanced haplotype contigs for autopolyploid genome assemblies. Adding a contraint on the distribution of proteins among haplotypes improves haplotype sizes ...
https://www.biorxiv.org/content/10.1101/2025.04.01.646355v1.article-metrics
10 months ago
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reposted by
Christophe Klopp
INRAE Migale
11 months ago
Vous avez les bases mais souhaitez aller plus loin dans la programmation
#Python
? Notre cycle de formation "Bioinformatique par la pratique" propose également ce module avancé à Jouy-en-Josas sur 2 jours (2 et 3 avril). 📝 Inscriptions et programme sur
documents.migale.inrae.fr/trainings.html
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reposted by
Christophe Klopp
Rachel Rupp
11 months ago
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www.biorxiv.org/content/10.1...
loading . . .
Benchmarking long-read genome assemblers for three sequencing protocols and three agricultural species
Today, long read technologies make it possible to produce telomere-to-telomere genome assemblies. These assemblies permit more accurate whole genome analyses, including on repeated regions. The genome...
https://www.biorxiv.org/content/10.1101/2025.02.14.638238v1
11 months ago
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