⚡ ♒ Rapid prokaryotic genome annotation

Trinity RNA-Seq de novo transcriptome assembly

Manage perl installations in your $HOME

Automatically exported from code.google.com/p/cdhit

Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/

BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes

Extensive de-novo TE Annotator

Core BioPerl 1.x code

TransDecoder source

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

🔬 ♌ Bacterial ribosomal RNA predictor

De-Novo Repeat Discovery Tool

LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.

PASA software

Any Way to Show Multi genomic Synteny

ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data

🌳 Create a tree using Mash distances

Discovering known and novel miRNAs from small RNA sequencing data

GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the scenario where high quality proteins from one or several close…

Biopieces is a bioinformatic framework of tools easily used and easily created.

Convert various sequence formats to FASTA

MITObim - mitochondrial baiting and iterative mapping

source code for EVM

Practical, reusable scripts for bioinformatics

ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data

Few scripts facilitating the extraction of info from Repeat Masker .out files

A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.

Mapping pipeline for data generated using Arima-HiC

⛓ Long Interval Nucleotide K-mer Scaffolder