Haskell Bioinformatics

Cluster single cells and analyze cell clade relationships with colorful visualizations.

ABIF parser, writer and generator

Analyze, modify and simulate molecular sequence data and phylogenetic trees in a reproducible way.

Haskell cabal libary for submission and result retrieval from the NCBI Entrez REST webservice

Hierarchical spectral clustering of a graph.

Generate a tree for displaying a hierarchy of groups with colors, scaling, and more.

Automated theorem prover for a linear logic-based calculus for molecular biology.

Find the modularity of a network.

Integrate difference data sources and optionally perform differential integration.

Ensembl related functions and datastructures

Finds out whether an entity comes from different distributions (statuses).

ViennaRNA v2 extensions in Haskell

Subsample data from a uniform distribution so two different statuses for the same entity have the same number of samples.

normalize

Process the output of heatitup in order to collapse sequences into clones by similar ITD mutations.

Compile separate tex files with the same bibliography.

Find and annotate ITDs with assembly or read pair joining using suffix trees and characterize the exogenous segments within the spacer using heat diffusion. A layer on top of heatitup for additional functionality such as working with BAM files directly.

merge two ordered Producers into a new Producer

Find and annotate ITDs.