cgnat Goto Github PK

100days

100 days of algorithms

age

a tools that implements an algorithm for optimal alignment of sequences with structural variants (SVs)

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

bioinformatics-cafe

Unsorted scripts for bioinformatics

bionano-tools

Custom tools to 'facilitate' BioNano Genomics data analysis

c.george.lawrence

cheatsheets

Chetsheets & notes from many common libraries and packages

cheatsheets-ai

Essential Cheat Sheets for deep learning and machine learning researchers

chromomap

:exclamation: This is a read-only mirror of the CRAN R package repository. chromoMap — Interactive Visualization and Mapping of Chromosomes

clustermodel

fitting models to clustered correlated data

context

A bioinformatic pipeline for identifying structural variation in repetitive DNA using NGS data.

deeplearningzerotoall

TensorFlow Basic Tutorial Labs

densitymap

DensityMap is perl tool for the visualization of features density along chromosomes

deviate

Python tool for the analysis and visualization of mobile genetic elements

dnapipete

dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require genome assembly and works on small datasets (< 1X).

dog_recombination

Supporting data for doi:10.1534/g3.116.034678: A Pedigree-Based Map of Recombination in the Domestic Dog Genome

epiteome

Simultaneous Detection of Transposable Element Insertion Sites and their DNA Methylation Levels from Plant Genomes

factorial

Python script to compute the factorial of an integer

freebayes

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

g4imgrinder

G4-iM Grinder is a fast, robust and highly adaptable algorithm. It is capable of locating, identifying, qualifying and quantifying DNA and RNA potential quadruplex structures, such as G-quadruplex, i-Motifs and their higher order versions.

genomics_general

General tools for genomic analyses.

ginom

GINOM is a statistical framework for assessing interval overlap of multiple genomic features.

gobe

a fast, interactive, light-weight, customizable, web-based comparative genomics viewer with simple text input format.

greta

simple and scalable statistical modelling in R

gridss

GRIDSS: the Genomic Rearrangement IDentification Software Suite

handson-ml

A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in python using Scikit-Learn and TensorFlow.

hot_scan

hot_scan is a free software to detect genomic regions unusually rich (hotspot) in a given pattern via scan statistics

hotspots

A method for finding hotspots of rearrangement breakpoints.

hypothesis-testing-with-python

True difference or noise? 📊

isofinder

IsoFinder: Finding isochores in genome sequences