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HASLR: a hybrid assembler which uses both second and third generation sequencing reads
By BioStar 1643 days agogithub.com - HASLR, a hybrid assembler which uses both second and third generation sequencing reads to efficiently generate accurate genome assemblies. Our experiments show that HASLR is not only the fastest assembler but also the one with the lowest number of...Sequence Ontology Bioinformatics Analysis (SOBA) tool to provide a simple statistical and graphical...
By BioStar 1563 days agowww.sequenceontology.org - We have developed the Sequence Ontology Bioinformatics Analysis (SOBA) tool to provide a simple statistical and graphical summary of an annotated genome. We envisage its use during annotation jamborees, genome comparison and for use by developers...Svardal lab
In the Svardal lab they are interested how the astonishing natural diversity we see on earth came into being, by which forces it formed and how it is changing today. Hence, they are trying to understand the process of evolution, with mathematical...HapSolo: An optimization approach for removing secondary haplotigs during diploid genome assembly...
By Jit 1273 days agogithub.com - HapSolo, that identifies secondary contigs and defines a primary assembly based on multiple pairwise contig alignment metrics. HapSolo evaluates candidate primary assemblies using BUSCO scores and then distinguishes among candidate assemblies using...Josefa González Lab
Lab focus on understanding how organisms adapt to their environments. They combine omics approaches with detailed molecular and phenotypic analyses to get a comprehensive picture of adaptation. Our aim at being internationally recognized as a...ncbi-datasets-cli -- Quickstart: command line tools !
By Jit 1060 days ago Comments (1)www.ncbi.nlm.nih.gov - Install and use the NCBI Datasets command line tools The NCBI Datasets datasets command line tools are datasets and dataformat . Use datasets to download biological sequence data across all domains of life from...PLAR: Pipeline for lncRNA annotation from RNA-seq data
By Abhi 1029 days agowww.weizmann.ac.il - Due to several requests, we are releasing an assingment of orthologs, determined using the same methods used in Hezroni et al. (BLAST, Whole Genome Alignment (WGA), and synteny). One is comparing human GENCODE genes (from GENCODE v30) to lncRNAs...Monkeypox virus isolate MPXV_USA_2022_MA001, complete genome
By Jit 829 days agowww.ncbi.nlm.nih.gov - LOCUS ON563414 197205 bp DNA linear VRL 30-MAY-2022 DEFINITION Monkeypox virus isolate MPXV_USA_2022_MA001, complete genome. ACCESSION ON563414 VERSION ON563414.3 KEYWORDS . SOURCE Monkeypox virus...MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
By Abhi 423 days agogithub.com - MitoHiFi v3.2 is a python pipeline distributed under MIT License ! MitoHiFi was first developed to assemble the mitogenomes for a wide range of species in the Darwin Tree of Life Project...quarTeT: a telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat...
By Abhi 146 days agowww.atcgn.com - quarTeT is a collection of tools for T2T genome assembly and basic analysis in automatic workflow.Task include: AssemblyMapper : reference-guided genome assembly GapFiller : long-reads based gap filling TeloExplorer : telomere...
