Jit
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UniqueKmer: Generate unique KMERs for every contig in a FASTA file
By Abhi 1073 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). This tool...Comparative Genomics Workshops !
By Rahul Nayak 1033 days agowww.genome.gov - This meeting's objective was to obtain a big picture look at the current state of the field of comparative genomics with a focus on commonalities across genomic investigations into humans, model organisms (both traditional and...Environmental Genomics Group SciLifeLab/KTH Stockholm
By BioStar 724 days agohttps://github.com/envgen - Useful Metagenomics resourcesNCBI Datasets pages
By BioStar 500 days agoAssembly and Genome record pages now redirect to new NCBI Datasets pages.Entire Human Genome Sequencing !
By LEGE 236 days agoCost-effective whole human genome sequencing has revolutionized the landscape of genetic research and personalized medicine by making comprehensive genetic analysis accessible to a wider population. Through advancements in sequencing technologies,...KEGG Mapper – Reconstruct Pathway
By Abhimanyu Singh 2173 days agowww.kegg.jp - Reconstruct Pathway is a KEGG PATHWAY mapping tool that assists genome and metagenome annotations. The input data is a single gene list (for a single organism) or multiple gene lists (for multiple organisms) annotated with KEGG Orthology (KO)...S-plot2: Rapid Visual and Statistical Analysis of Genomic Sequences
By Abhimanyu Singh 2244 days agobitbucket.org - S-plot2 creates an interactive, two-dimensional heatmap capturing the similarities and dissimilarities in nucleotide usage between genomic sequences (partial or complete). In S-plot2, whole eukaryotic chromosomes and smaller prokaryotic genomes can...Nucl2Vec: Local alignment of DNA sequences using Distributed Vector Representation
By Jit 1348 days agoprakharg24.github.io - We demonstrate a novel approach forlocal alignment of DNA reads with respect to reference genome.For this process we have used Skip-gram model for creatingencoding(Nucl2Vec) and k-nearest neighbor for the alignment.With our new approach we have...minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
By Jit 2348 days agogithub.com - git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequences against a reference genome ./minimap2 -a test/MT-human.fa test/MT-orang.fa > test.sam # create an index first and then map ./minimap2 -d MT-human.mmi...COSINE: non-seeding method for mapping long noisy sequences
By Jit 2221 days agogithub.com - Third generation sequencing (TGS) are highly promising technologies but the long and noisy reads from TGS are difficult to align using existing algorithms. Here, we present COSINE, a conceptually new method designed specifically for aligning long...
