Maxime Borry's starred repositories
mummer2circos
Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
vcf2circos
python plotly Circos from VCF
uv-k5-firmware-custom
This is a fork of Egzumer https://github.com/egzumer/uv-k5-firmware-custom
uv-k5-firmware-custom
Open re-implementation of the Quansheng UV-K5 firmware
uv-k5-firmware-custom
A merge between https://github.com/OneOfEleven/uv-k5-firmware-custom and https://github.com/fagci/uv-k5-firmware-fagci-mod
strainberry
Automated strain separation of low-complexity metagenomes
parsnp
Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surrounding SNP sites for filtration/cleaning, in addition to existing tools for recombination detection/filtration and phylogenetic reconstruction.
wesanderson
Wes Anderson color palettes for python!
gatsby-starter-conference
Gatsby starter for conference website
gatsby-theme-agora
A Gatsby theme for creating conference landing pages
nextflow-gotchas
A collection of unexpected challenges and learnings with nextflow and nf-core.
TreeViewer
Cross-platform software to draw phylogenetic trees
pysamstats
A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.