Poonam Mahapatra
Bioinformatics Researcher
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CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
By Jit 1649 days agogithub.com - Contig Annotation Tool (CAT) and Bin Annotation Tool (BAT) are pipelines for the taxonomic classification of long DNA sequences and metagenome assembled genomes (MAGs/bins) of both known and (highly) unknown microorganisms, as generated by...Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
By Jit 2556 days agosourceforge.net - Modern genome sequencing strategies are highly sensitive to contamination making the detection of foreign DNA sequences an important part of analysis pipelines. Here we use Taxoblast, a simple pipeline with a graphical user interface, for the...GRAbB: Selective Assembly of Genomic Regions, a New Niche for Genomic Research
By Rahul Nayak 2127 days agogithub.com - GRAbB is shown to be more efficient than MITObim in terms of speed, memory and disk usage. The other functionalities (handling multiple targets simultaneously and extracting homologous regions) of the new program are not matched by other programs....Kraken: ultrafast metagenomic sequence classification using exact alignments
By Jit 3070 days ago Comments (1)www.ncbi.nlm.nih.gov - Kraken is an ultrafast and highly accurate program for assigning taxonomic labels to metagenomic DNA sequences. Previous programs designed for this task have been relatively slow and computationally expensive, forcing researchers to use faster...Classification of SARS-CoV2 Variant !
By Jit 1092 days agoThe scientists established some guidelines for determining whether a variant is a legitimate branch of an existing lineage:CLARK: Fast, accurate and versatile sequence classification system
By Jit 1742 days agoclark.cs.ucr.edu - CLARK, a method based on a supervised sequence classification using discriminative k-mers. Considering two distinct specific classification problems (see the article for details), namely (1) the taxonomic classification of metagenomic reads to...Tiara: deep learning-based classification system for eukaryotic sequences
By Rahul Nayak 984 days agoacademic.oup.com - With a large number of metagenomic datasets becoming available, eukaryotic metagenomics emerged as a new challenge. The proper classification of eukaryotic nuclear and organellar genomes is an essential step toward a better understanding of...Metabuli 분리 improves metagenomic read classification
By Abhi 538 days agogithub.com - Metabuli 분리 improves metagenomic read classification through metamers, DNA-AA k-mers, to be sensitive and specific, recovering 99% and 98% of DNA or AA classifiers. Metabuli is metagenomic classifier that jointly analyze both DNA and amino...BBTools for bioinformatician !
By Surabhi Chaudhary 2472 days ago Comments (1)BBTools can do almost everything now !Genomic Scientist at UDSC
Centre for Genetic Manipulation of Crop Plants Department of Genetics University of Delhi South Campus NEW DELHI – 110 021 WALK-IN-INTERVIEW FOR THE TEMPORARY POSITIONS OF RESEACH SCIENTIT & LAB / FIELD ATTENDANT 1 Research...
