Abhimanyu Singh
A bioinformatics beginner
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SAM flags
By Poonam Mahapatra 3691 days ago Comments (4)broadinstitute.github.io - Decoding SAM flags This utility makes it easy to identify what are the properties of a read based on its SAM flag value, or conversely, to find what the SAM Flag value would be for a given combination of properties. To decode a given SAM flag...DAVI: Deep learning-based tool for alignment and single nucleotide variant identification
By Jit 1971 days ago Comments (1)github.com - DAVI consists of models for both global and local alignment and for variant calling. We have evaluated the performance of DAVI against existing state-of-the-art tool sets and found that its accuracy and performance is comparable to existing tools...Kaiju
By Jit 3693 days agohttp://kaiju.binf.ku.dk/ - Kaiju is a program for the taxonomic classification of metagenomic high-throughput sequencing reads. Each read is directly assigned to a taxon within the NCBI taxonomy by comparing it to a reference database containing microbial and viral protein...ACANA: An accurate and consistent alignment tool for DNA sequences
By Jit 3166 days agowww.niehs.nih.gov - ACANA is an accurate and consistent alignment tool for DNA sequences. ACANA is specifically designed for aligning sequences that share only some moderately conserved regions and/or have a high frequency of long insertions or deletions. It attempts...Bioinformatics openings at ICGEB NEW DELHI, INDIA
Applications are invited for: ICGEB NEW DELHI, INDIA Biotechnology research positions Projects include: a) protein structure determination b) malaria parasite biology c) genomics and metagenomics d) molecular and cellular biology e)...zPicture: A dynamic blastz alignment visualization
By Archana Malhotra 3111 days agozpicture.dcode.org - zPicture is a dynamic alignment and visualization tool that is based on blastz alignment program utilized by PipMaker. zPicture alignments can be automatically submitted to rVista 2.0 to identify conserved transcription factor binding...Scarpa
By Poonam Mahapatra 3678 days agocompbio.cs.toronto.edu - Scarpa is a stand-alone scaffolding tool for NGS data. It can be used together with virtually any genome assembler and any NGS read mapper that supports SAM format. Other features include support for multiple libraries and an option to estimate...LAMSA: fast split read alignment with long approximate matches
By Jit 3007 days ago Comments (1)github.com - LAMSA (Long Approximate Matches-based Split Aligner) is a novel split alignment approach with faster speed and good ability of handling SV events. It is well-suited to align long reads (over thousands of base-pairs). LAMSA takes takes the...Aravind J Shankar gets all India rank 1 in BINC, 2016
By Jit 3672 days agoAravind J Shankar, a bioinformatics graduate of SASTRA University, has secured the all India rank 1 in BINCFind predicted CRISPR sites using Ensembl
By Jit 3664 days agoCas9 restricts DNA at specific Protospacer Adjacent Motifs (PAMs), which is species-dependent (for example, 5′ NGG 3′ for Streptococcus pyogenes Cas9).
