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DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
By Jit 2570 days agohttps://dfast.nig.ac.jp/ - We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome submission to public sequence databases. DFAST was originally started as an on-line annotation server, and to date, over 7,000 jobs have been processed since its...BUSCO
By Jitendra Narayan 3216 days agohttp://busco.ezlab.org/ - Assessing genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs More at http://busco.ezlab.org/MyPro: A seamless pipeline for automated prokaryotic genome assembly and annotation
By Neel 2905 days agowww.sciencedirect.com - MyPro is an improved genomics software pipeline for prokaryotic genomes. MyPro is user-friendly and requires minimal programming skills. High-quality prokaryotic genome assembly and annotation can be obtained with ease. It performed better than de...DIAL
By Abhimanyu Singh 2828 days agowww.bx.psu.edu - A computational pipeline for identifying single-base substitutions between two closely related genomes without the help of a reference genome. DIAL works even when the depth of coverage is insufficient for de novo assembly, and it can be extended to...funannotate: Eukaryotic Genome Annotation Pipeline
By Jit 2262 days agogithub.com - Funannotate is a genome prediction, annotation, and comparison software package. It was originally written to annotate fungal genomes (small eukaryotes ~ 30 Mb genomes), but has evolved over time to accomodate larger genomes. The impetus for this...LACHESIS: Genome Assembly with Hi-C-based Contact Probability Maps (LACHESIS)
By Jit 2390 days agoshendurelab.github.io - LACHESIS is method that exploits contact probability map data (e.g. from Hi-C) for chromosome-scale de novo genome assembly. Further information about LACHESIS, including source code, documentation and a user's guide are available...Environmental Genomics Group SciLifeLab/KTH Stockholm
By BioStar 728 days agohttps://github.com/envgen - Useful Metagenomics resourcespipesnake: bioinformatics best-practice analysis pipeline for phylogenomic reconstruction
By LEGE 281 days agogithub.com - ausarg/pipesnake is a bioinformatics best-practice analysis pipeline for phylogenomic reconstruction starting from short-read 'second-generation' sequencing data. The pipeline is built using Nextflow, a workflow tool to run tasks across...Scripts for the analysis of HGT in genome sequence data.
By Jit 2555 days agogithub.com - Scripts for the analysis of HGT in genome sequence dataDe novo Genome Assembly for Illumina Data
By Rahul Nayak 1774 days agowww.melbournebioinformatics.org.au - Written and maintained by Simon Gladman - Melbourne Bioinformatics (formerly VLSCI) Protocol Overview / Introduction In this protocol we discuss and outline the process of de novo assembly for small to medium sized...
