bioinformatics
Repositories (1466)
Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
Software for comparing contact maps from HiC, CaptureC and other 3D genome data.
Stacked Denoising AutoEncoder based on TensorFlow
(No maintenance) Next Generation Sequencing Simulation with SNP, Variation and Sequencing Error Integrated
Data and analysis for the Splatter paper
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
Fork of the Polysolver project
SNPbinner is a utility for the generation of genotype crossover points and binmaps based on SNP data across recombinant inbred lines.
3D printed sculpture of a DNA molecule, showing my own genome
exploratory and interactive microbiome analyses based on heatmaps
This is the main repository for the HackBio'2020 Virtual Internship Experience ❤️
Compute N50/NG50 and auN/auNG
A comprehensive pipeline for short read metagenomic data
Generate interactive dotplot from mummer4 output using plotly
Method to optimally select samples for validation and resequencing
A collection of modules and sub-workflows for Nextflow
Important bioinformatics algorithms as well as other useful scripts
GRAph-based Finding of Individual Motif Occurrences
R package – HLA Genotype Imputation with Attribute Bagging (development version only)
A case study on Pfam dataset to classify protein families.
CiteFuse:
Viral quasispecies assembly via maximal clique finding. A method to reconstruct viral haplotypes and detect large insertions and deletions from NGS da...
Visual Machine Learning of Genome-Phenome Associations
GEDFN: Graph-Embedded Deep Feedforward Network
Command line tools for CMDB varaints browser
DeepChem 2017: Deep Learning & NLP for Computational Chemistry, Biology & Nano-materials
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
MView extracts and reformats the results of a sequence database search or multiple alignment.
Example client programs for Saphetor's VarSome annotation API
Multilocus sequence typing by blast using the schemes from PubMLST
Count kmers with a more efficient (faster) hash table
A platform to do RNA science
🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
Collection of scripts for automated SARS-CoV-2 genome surveillance.
Project Manager for NGS data analysis
Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub
An implementation of Count-Min Sketch in Golang
:earth_americas: Review materials for bioinformatics, computational biology, and science in general
Tool for estimating growth rates from microbial growth curves
Plot microbiome time series in parallel
Annotation of mutated peptide sequences with published or novel potential neoantigen descriptors
Single Cell Analysis course at Cold Spring Harbor Laboratory 2017
Neural networks to segment some type of biomedical images
CWL (and input file) parser for Golang, used by github.com/otiai10/yacle
This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion
Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC M...
Read DNA sequences from colourful Microsoft Word documents
Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads
A tool to plot significant regions of GWAS