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Allio, R., Schomaker-Bastos, A., Romiguier, J., Prosdocimi, F., Nabholz, B., & Delsuc, F. (2020) Mol Ecol Resour. 20, 892-905. (publication link) Mitofinder ...313 days ago
- Flanker, a Python package which performs alignment-free clustering of gene flanking sequences in a consistent format, allowing investigation of mobile genetic elem...
1225 days ago
AlignGraph2: similar genome-assisted reassembly pipeline for PacBio long reads
AlignGraph2 is the second version of AlignGraph for PacBio long reads. It extends and refines contigs assembled from the long reads with a published genome similar to the sequencing genome. More at https://academic.oup.com/bib/advance-article-abstract/doi/10.1093/bib/bbab022/61467721211 days ago
IVA: accurate de novo assembly of RNA virus genomes
...ers. Availability and implementation: The software runs under Linux, has the GPLv3 licence and is freely available from http://sanger-pathogens.github.io/iva https://pubmed.ncbi.n...1110 days ago
JumboDB: tool for de Bruijn graph construction
...is not a genome assembler by itself but rather a subroutine that translates a set of reads into compressed de Bruijn graph. More at https://github.com/AntonBankevich/jumboDB...1055 days ago
The Snakemake Wrappers repository
The Snakemake Wrapper Repository is a collection of reusable wrappers that allow to quickly use popular tools from Snakemake rules and workflows. More at https://github.com/snakemake/snakemake-wrappers1053 days ago
- ...nd pipelines when needed, however we always emphasize biological interpretation of the data. More at https://ucdavis-bioinformatics-training.github.io/
1047 days ago
- judi comes from the idea of bringing the power and efficiency of doit to execute any kind of task under many combinations of parameter settings. https://github.com/ncbi/JUDI
1035 days ago
- ...ls. reading: http://compgenomr.github.io/book/stats.html slides: https://github.com/BIMSBbioinfo/compgen2021/...ods reading: http://compgenomr.github.io/book/unsupervisedLearning....pts reading: http://compgenomr.github.io/book/supervisedLearning.ht...
1032 days ago
RagTag: a collection of software tools for scaffolding and improving modern genome assemblies
RagTag is a collection of software tools for scaffolding and improving modern genome assemblies. Tasks include: Homology-based misassembly correction Homology-based assembly scaffolding and patching Scaffold merging1030 days ago
