⚡ ♒ 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

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

Any Way to Show Multi genomic Synteny

🌳 Create a tree using Mash distances

Discovering known and novel miRNAs from small RNA sequencing data

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

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…

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

⛓ Long Interval Nucleotide K-mer Scaffolder

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

Mapping pipeline for data generated using Arima-HiC