BiopythonOfficial git repository for Biopython (originally converted from CVS)
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genesisA library for working with phylogenetic and population genetic data.
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PCG𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for general phylogenetic graph search
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archaeopteryx-jsArchaeopteryx.js is a software tool for the visualization and analysis of highly annotated phylogenetic trees.
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get phylomarkersA pipeline to select optimal markers for microbial phylogenomics and species tree estimation using coalescent and concatenation approaches
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motifmatchrFast motif matching in R
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CellOCellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
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TypeTEGenotyping of segregating mobile elements insertions
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epivizEpiViz is a scientific information visualization tool for genetic and epigenetic data, used to aid in the exploration and understanding of correlations between various genome features.
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reg-genRegulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
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argparse2tooltransparently build CWL and Galaxy XML tool definitions for any script that uses argparse
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geneviewGenomics data visualization in Python by using matplotlib.
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bistroA library to build and execute typed scientific workflows
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peppyProject metadata manager for PEPs in Python
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netSmoothnetSmooth: A Network smoothing based method for Single Cell RNA-seq imputation
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RcpiMolecular informatics toolkit with a comprehensive integration of bioinformatics and cheminformatics tools for drug discovery.
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perbasePer-base per-nucleotide depth analysis
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bacnetBACNET is a Java based platform to develop website for multi-omics analysis
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flexidotHighly customizable, ambiguity-aware dotplots for visual sequence analyses
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echolocatoRAutomated statistical and functional fine-mapping pipeline with extensive API access to datasets.
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StackedDAEStacked Denoising AutoEncoder based on TensorFlow
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SemiBinNo description or website provided.
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SumStatsRehabGWAS summary statistics files QC tool
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gencoreGenerate duplex/single consensus reads to reduce sequencing noises and remove duplications
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calourexploratory and interactive microbiome analyses based on heatmaps
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genomediscoSoftware for comparing contact maps from HiC, CaptureC and other 3D genome data.
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pathway-mapperPathwayMapper: An interactive and collaborative graphical curation tool for cancer pathways
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tiptoftPredict plasmids from uncorrected long read data
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awesome-geneticsA curated list of awesome bioinformatics software.
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fermikitDe novo assembly based variant calling pipeline for Illumina short reads
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block-alignerSIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.
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crazydocRead DNA sequences from colourful Microsoft Word documents
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chromapFast alignment and preprocessing of chromatin profiles
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virnetVirNet: A deep attention model for viral reads identification
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GenomeAnalysisModuleWelcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.
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BioKEENA computational library for learning and evaluating biological knowledge graph embeddings
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picardmetrics🚦 Run Picard on BAM files and collate 90 metrics into one file.
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bio toolsUseful bioinformatic scripts
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RNAseq titration resultsCross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously
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ngstoolsMy own tools code for NGS data analysis (Next Generation Sequencing)
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revolverREVOLVER - Repeated Evolution in Cancer
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referenceseekerRapid determination of appropriate reference genomes.
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AMIDDIntroduction to Applied Mathematics and Informatics in Drug Discovery (AMIDD)
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OpenGene.jl(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia
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matamMapping-Assisted Targeted-Assembly for Metagenomics
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