SeQuiLa-cov: A fast and scalable library for depth of coverage calculations
The Docker image is available at https://hub.docker.com/r/biodatageeks/. Supplementary information...marking procedure as well as test data are publicly accessible at th...documentation site http://biodatageeks.org/sequila/benchmarking...Project home page: http://biodatageek...1667 days ago
Machine learning training and courses in bioinformatics !
Machine learning techniques have been successful in analyzing biological data because of their capabilities...andling randomness and uncertainty of data noise and in generalization....ian networks) for biological sequence analysis and systems biology. Other ma...1651 days ago
DeCoSTAR: Reconstructing the Ancestral Organization of Genes or Genomes Using Reconciled Phylogenies
DeCoSTAR computes adjacency evolutionary scenarios using a scoring scheme based on a weighted sum of adjacency ga...gene fusion and fission events, or of gene order along chromosomes, for large data set...1648 days ago
RePS: Repeat-masked Phrap with scaffolding, a WGS sequence assembler
RePS (Repeat-masked Phrap with scaffolding), a WGS sequence assembler, that explicitly identifies exact kmer repeats from the shotgun data and...1648 days ago
heatmaply: popular graphical method for visualizing high-dimensional data
This work is based on ggplot2 and plotly.js engine. It produces similar heatmaps as d3heatmap, with the advantage of speed (plotly.js is able to handle larger size matri...1640 days ago
ngs-bits - Short-read sequencing tools
Binaries of ngs-bits are available via Bioconda. Alternatively, ngs-bits can be built from sources: Binaries for Linux/macOS From sources for Linux/macOS From sources for Windows1635 days ago
ClinCNV: Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
ClinCNV detects CNVs in germline and somatic context in NGS data (targeted and whole-genome). We work in cohorts, so it makes sense to t...0 samples (recommended amount - 40 since we estimate variances from the data). B...1635 days ago
De novo Genome Assembly for Illumina Data
Written and maintained by Simon Gladman - Melbourne Bioinformatics (formerly VLSCI) Protocol Overview / Introduction In this protocol we discuss and outline the proces...1632 days ago
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modelStudio: a package automates the explanation of machine learning predictive models
The modelStudio package automates the explanation of machine learning p...planations. Tools for model exploration unite with tools for EDA (Exploratory Data Analysis) to give a broad overview of...1629 days ago