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Abhi on LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data (636 days ago): Detail paper here https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8111061/- BioStar on Perl Module Installation (1092 days ago): To install BioPerl on a macOS system, you can follow these steps: Open the...
- Abhi on CovCal: Coverage / Read Count Calculator (1253 days ago): Sequencing coverage is defined as the average number of reads that covers...
- Neel on CheckM:Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes (1305 days ago): MOre at https://bitbucket.org/berkeleylab/checkv/src/master/
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Refseq viraal genome sequences !
By Jit 1546 days agoftp.ncbi.nlm.nih.gov - List of all viruses on NCBI https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/fastv - detect virus
By Jit 1546 days agogithub.com - fastv is an ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. It detects microbial sequences from FASTQ data, generates JSON reports and visualizes the result in HTML reports. This tool can be used to detect...UniqueKMER
By Jit 1546 days agogithub.com - Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consisted of k-mer keys (i.e. ATCGATCCTTAAGG) that are only presented in one contig, but not presented in any other contigs (for both forward and reverse strands).Pangolin tutorial !
By Abhi 1547 days agocov-lineages.org - This is a tutorial for using the Pangolin Web Application. For information on using the command line tool, please visit the command line tool usage page. https://cov-lineages.org/resources/pangolin/tutorial.htmlncbi-datasets-cli -- Quickstart: command line tools !
By Jit 1550 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...MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization
By Neel 1556 days agogithub.com - MitoZ, consisting of independent modules of de novo assembly, findMitoScaf (find Mitochondrial Scaffolds), annotation and visualization, that can generate mitogenome assembly together with annotation and visualization results from HTS raw...Fix rewritable error of ELGG !
By Abhi 1572 days ago Comments (1)www.digitalocean.com - The mod_rewrite module uses a rule-based rewriting engine, based on a PCRE regular-expression parser, to rewrite requested URLs on the fly. By default, mod_rewrite maps a URL to a filesystem path. However, it can also be used to...Pango Lineage Analysis !
By Abhi 1572 days agocov-lineages.org - The Pango nomenclature is being used by researchers and public health agencies worldwide to track the transmission and spread of SARS-CoV-2, including variants of concern. This website documents all current Pango lineages and their spread, as well...Apache server setting !
By Abhi 1589 days agoubuntu.com - Apache is an open source web server that’s available for Linux servers free of charge. In this tutorial we’ll be going through the steps of setting up an Apache server. What you’ll learn How to set up Apache Some basic Apache...Understanding pango networks !
By Abhi 1602 days agowww.pango.network - In the vast majority of instances it is expected that Pango lineage names and designations will conform to the following rules. These rules also act as guidelines for the decisions made by the Lineage Designation...
