rattler-build is a universal package builder for Windows, macOS and Linux

Implementation of Alphafold 3 in Pytorch

Extracting Tables from Document Images using a Multi-stage Pipeline for Table Detection and Table Structure Recognition:

Determine presence of telomeres and visualise genome assembly scaffolds.

Turn (almost) any Python command line program into a full GUI application with one line

RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.

Simple perl scripts for dealing with infernal and/or hmmer output/input.

Annotate C(CAZy)M(MEROPS)P(PHI)P(P450) for fungi.

This package contains deep learning models and related scripts for RoseTTAFold

Supervised learning for fungal BGC discovery

Reinforcement learning for improving components in fungal BGCs

A logistic regression model for testing differential abundance in compositional microbiome data

A comparative genomics workflow using Nextflow, conda, Julia and R

Python handling of MIBiG data

Supervised learning on phylogeneticallydistributed data

Universal and efficient core gene phylogeny with Foldseek and ProstT5

A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

BGC Detection and Classification Using Deep Learning

PECAT, a phased error correct and assembly tool

Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.

Minimizer-based assembly scaffolding and mapping using long reads

Linear-time de novo Long Read Assembler

HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NGS and 3rd generation sequencing to rapidly and accurately as…

CrossHyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NGS and 3rd generation sequencing to rapidly and accurate…

A statistical framework for ploidy estimation using NGS short-read data

A tool for representing genomic potential and transcriptomic expression into KEGG pathways