Abhimanyu Singh
A bioinformatics beginner
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LRCstats: a tool for evaluating long reads correction methods
By Aaryan Lokwani 2285 days agogithub.com - LRCstats is an open-source pipeline for benchmarking DNA long read correction algorithms for long reads outputted by third generation sequencing technology such as machines produced by Pacific Biosciences. The reads produced by third generation...ClipCrop: a tool for detecting structural variations with single-base resolution using...
By Rahul Nayak 2241 days agogithub.com - This is a tool for detecting structural variations using soft-clipping information From SAM files. https://github.com/shinout/clipcropiRNAD: a computational tool for identifying D modification sites in RNA sequence
By Abhimanyu Singh 2018 days agolin-group.cn - iRNAD, for identifying D modification sites in RNA sequence. In this predictor, the RNA samples derived from five species were encoded by nucleotide chemical property and nucleotide density. Support vector machine was utilized to perform the...AirLift, a methodology and tool for comprehensively moving mappings and annotations from one genome...
By Jit 1797 days agogithub.com - We propose AirLift, a methodology and tool for comprehensively moving mappings and annotations from one genome to another similar genome while maintaining the accuracy of a full mapper.iSeqQC: a tool for expression-based quality control in RNA sequencing
By BioStar 1742 days agogithub.com - iSeqQC, an expression-based QC tool that detects outliers either produced due to variable laboratory conditions or due to dissimilarity within a phenotypic group. iSeqQC implements various statistical approaches including unsupervised clustering,...CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
By Jit 1650 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...mixtureS: a novel tool for bacterial strain reconstruction from reads
By BioStar 1555 days agowww.cs.ucf.edu - mixtureS that can de novo identify bacterial strains from shotgun reads of a clonal or metagenomic sample, without prior knowledge about the strains and their variations. Tested on 243 simulated datasets and 195 experimental datasets, mixtureS...MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
By BioStar 1458 days agogithub.com - The algorithm presented herein, Mining Algorithm for GenetIc Controllers (MAGIC), uses ENCODE ChIP-seq data to look for statistical enrichment of TFs and cofactors in gene bodies and flanking regions in gene lists without...Comparative genomics visualisation tools !
By Neel 1010 days agocmdcolin.github.io - Comparative genomics visualisation tools !CGView.js is a Circular Genome Viewing tool
By LEGE 241 days agohttps://js.cgview.ca/ - CGView.js is a Circular Genome Viewing tool for visualizing and interacting with small genomes. This software is an adaptation of the Java program CGView. CGView.js is the genome viewer of Proksee, an expert system for genome...
