bioinformatics
Projects with this topic
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Workflow babel is a visual workflow creation tool. Create a workflow visually then output correct code for your workflow execution tool of choice.
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Calculating codon usage in a DNA sequence using OMP in C++.
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Bioinformatics toolkit, written in Python and PyQT with Rust plugin system.
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SISSI++ (Simulating Site Specific Interactions) is a tool to simulate the site specific interactions along a phylogenetic tree based on patterns in alignments (RNA, DNA, codons, aminoacids) considering thermodynamic data.
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Package for the building of Protein-Protein/DNA Complexes in Python
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Custom scripts or projects.
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A Javascript library to interact with MiST3 API written in TypeScrypt.
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Demo project for using kubernetes to externalize in a cloud the functionality of genomic package - Amaretto - using docker image based on bioconductor one
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Snakemake RNAseq processing pipeline (STAR or Salmon) via a SLURM cluster
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Resumen de los documentos generados en el análisis metagenómico entre el Salar de Huasco y Lirima.
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Generates a graph image with Graphviz DOT starting from a BCALM generated FASTA file representing a de Bruijn graph of sequencing data.
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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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Generates the closed unitigs starting from a BCALM generated FASTA file representing a de Bruijn graph of sequencing data.
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CommunityYeastract database and web php front-end
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FFIND is a data-agnostic, scalable web platform with capability to integrate image and non-image data types (transcriptomics, flow cytometry, electrophysiology) into a user interface tailored to project-specific goals.
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DuploMap is designed to improve precision and recall of long-read alignments in segmental duplications.
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