bioinformatics
Projects with this topic
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This project includes python scripts with examples used for the below article in GBE. It is also archived on Figshare (https://doi.org/10.6084/m9.figshare.17111693).
Red algal plastids exhibit large genome size variation, especially in the recently described subphylum Proteorhodophytina. By contrast, their mitochondrial genomes remain unexplored. Here, we sequenced, assembled, and analyzed new plastid and mitochondrial genomes of 25 species of red microalgae. We uncovered new cases of genome size expansion in plastids and mitochondria, in both cases associated with group II intron proliferation. The phylogenomic analysis supported that these expansions occurred several times independently. URL: https://doi.org/10.1093/gbe/evac037
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Snakemake RNAseq processing pipeline (STAR or Salmon) via a SLURM cluster
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[mirror] BAM file annotation with mutations.
This is just a mirror. Head over to Codeberg.org for active development
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Fungal Secreted Proteins (or Secretome) Annotation Pipeline
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Fungal Secreted Proteins (or Secretome) Predictor Pipeline
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auxiliary tools for bioinformatic pipelines and sequencing data manipulation
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Lectures by Sven Rahmann in the form of Jupyter notebooks
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