Jit
Enthusiast computational biologist with business dream !!!
Latest comments
- Abhinav on CovCal: Coverage / Read Count Calculator (575 days ago): Sequencing coverage is defined as the average number of reads that covers...
- Rahul Nayak on chromoMap-An R package for Interactive Visualization and Annotation of Chromosomes (775 days ago): More at https://lakshay-anand.github.io/chromoMap/index.html
- Rahul Nayak on Kraken: ultrafast metagenomic sequence classification using exact alignments (781 days ago): Useful...
- Jit on ncbi-datasets-cli -- Quickstart: command line tools ! (872 days ago): (base) [jnarayan@hn1 TOOLS]$ curl -o datasets...
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Bioinformatics, Genome, NGS, Analysis, Assembly, tool, Reads, Sequencing, alignment, Visualization, Sequence, Genomes, Long, data, Annotation, Pipeline, Genomics, R, Fast, PacBio, Plot, Interactive, Web, read, Software, Gene, sequences, Assembler, Tutorial, Synteny, Assemblies, accurate, Chromosome, nanopore, Perl, DNA, de novo, Tools, Scaffolding, Genomic, Comparative, Correction, Package, View, Mapping, Program, MetaGenome, framework, Python, whole-genome
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Jit's bookmarks
auN: a new metric to measure assembly contiguity
By Jit 634 days agolh3.github.io - Given a de novo assembly, we often measure the “average” contig length by N50. N50 is neither the real average nor median. It is the length of the contig such that this and longer contigs cover at least 50% of the assembly. A...Monkeypox virus isolate MPXV_USA_2022_MA001, complete genome
By Jit 641 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...htop explained
By Jit 661 days agopeteris.rocks - For the longest time I did not know what everything meant in htop. I thought that load average 1.0 on my two core machine means that the CPU usage is at 50%. That's not quite right. And also, why does it say 1.0? I decided to look...InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams
By Jit 668 days agowww.interactivenn.net - InteractiVenn, a more flexible tool for interacting with Venn diagrams including up to six sets. It offers a clean interface for Venn diagram construction and enables analysis of set unions while preserving the shape of the diagram. Set unions are...Genomicus: genome browser that enables users to navigate in genomes in several dimensions
By Jit 788 days agowww.genomicus.bio.ens.psl.eu - Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time. Once a query gene has been entered, it...AGORA: Algorithm for Gene Order Reconstruction in Ancestors
By Jit 788 days agogithub.com - AGORA stands for “Algorithm for Gene Order Reconstruction in Ancestors” and was developed by Matthieu Muffato in the DYOGEN Laboratory at the École normale supérieure in Paris in 2008. // | | // ) ) // ) )...chromeister: An ultra fast, heuristic approach to detect conserved signals in extremely large...
By Jit 814 days agogithub.com - chromeister: An ultra fast, heuristic approach to detect conserved signals in extremely large pairwise genome comparisons. USAGE: -query: sequence A in fasta format -db: sequence B in fasta format -out: output matrix -kmer Integer: k>1...UCSC SARS-CoV-2 Genome Browser
By Jit 842 days agowww.nature.com - The UCSC SARS-CoV-2 Genome Browser (https://genome.ucsc.edu/covid19.html) is an adaptation of our popular genome-browser visualization tool for this virus, containing many annotation tracks and new features, including conservation with similar...Refseq viraal genome sequences !
By Jit 868 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 868 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...
