tools for genetic genealogy and the analysis of consumer DNA test results

tools for reading, writing, merging, and remapping SNPs

Chromosome polymer simulations and in silico capture experiments

Banding pattern extraction and banding pattern segmentation mask generation for stained banded chromosome images.

Machine Learning (ML) research within medicine and healthcare represents one of the most challenging domains for both engineers and medical specialists. One of the most desired tasks to be accomplished using ML applications is represented by disease detection. A good example of such a task is the detection of genetic abnormalities like Down synd…

🧬Chromosome Visualizations

Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species

A plugin to estimate chromosome sizes from karyotype images.

Assembler for HiC data

Gexplora - user-interface to analyse genomic elements along chromosomes

A Python script that implements a two player strategic game with two sequences of length n and m nucleotides respectively. At each Round of the game a player can remove a random number of nucleotides from one sequence or the same number of nucleotides from both sequences. The player who removes the last nucleotide wins.

A Python script that implements a two player strategic game with two chromosomes having length n and m of nucleotides respectively. In each Round of the game a player can destroy one of the chromosomes and split the other into two non-empty parts. The player who deletes the last nucleotide wins.

A python script that implements an efficient algorithm for the Chimeric Alignment problem. A virus infects a bacterium and modifies a replication process in the bacterium by adding for each A an A sequence of length 1-5, for each C a C sequence of length 1-10, for each G a G sequence of length >= 1 and for each T a T sequence of length >= 1.

collection of examples / demos for python 'datadraw' package, organized as a flask app

A Python script that for a parameter k, calculates the universal alignment of 2 sequences, with limitation that the alignment contains at most k unknown nucleotides. Nucleotide sequences are sometimes written in a 5-character alphabet, A, T, G, C, and N where N stands for an undefined nucleotide.

Measures the integral radial density of a fluorescent signal in a nucleus of any shape