Snakemake workflow: dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflow for calling small genomic variants.1797 days ago
jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator
jackalope simply and efficiently simulates (i) variants from reference genomes and (ii) reads from both Illumina...ce genomes from FASTA files or simulate new ones. Genomic variants can be simulated using summary statistics, phylogenies, Variant...1797 days ago
LRSDAY: Long-read Sequencing Data Analysis for Yeasts
Long-read sequencing technologies have become increasingly popular in genome projects due to their strengths in resolving complex genomic regions. As a leading model org...1765 days ago
1739 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate re...and orienting of contigs. Misassembly correction GFF lift-over Structural variant...1704 days ago
1673 days ago
BioJupies: Automatically Generates RNA-seq Data Analysis Notebooks
With BioJupies you can produce in seconds a customized, reusable, and interactive report from your own raw or processed RNA-seq data through a simple user interface Bio...1283 days ago
HaploTypo: a variant-calling pipeline for phased genomes
An increasing number of phased (i.e. with resolved haplotypes) reference genomes are available. However, most genetic variant calling tools do not explicit...the haplotype correspondence for each heterozygous variant...1650 days ago
Machine learning training and courses in bioinformatics !
Machine learning techniques have been successful in analyzing biological data because...models, Hidden Markov models, and Bayesian networks) for biological sequence analysis and systems biology. Other ma...1638 days ago
modelStudio: a package automates the explanation of machine learning predictive models
The modelStudio package automates the explanation of machine learning predi...tions. Tools for model exploration unite with tools for EDA (Exploratory Data Analysis) to give a broad overview of...1616 days ago