Updated Reference Genome Sequence and Annotation of Mycobacterium bovis AF2122/97
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Updated
Jun 20, 2017 - Shell
Updated Reference Genome Sequence and Annotation of Mycobacterium bovis AF2122/97
Algorithm to parse, assemble and align genomic sequences by use machine learning techniques. The resulting sequences are used to form NCBI-BLAST respects and return sequence homologs.
Cleavage site prediction via de novo assembly
Bio Big Data and Precision Medicine Training Course
Scripts for de novo genome assembly
Targeted analysis of alternative polyadenylation of candidate genes with RNA-Seq data
De novo repeat inference from long reads
SMP: A Salmonella Methylation analysis Pipeline
Yet Another De Novo Assembler (Work in progress)
De Bruijn graph-based De Novo genome assembly CLI tool
Deep learning model for classifying reads in de novo genome assembly.
Genome assembler de novo that uses De Bruijn graph.
A compilation of all the programs in my bioinformatics course
De novo repeat inference from long reads
Material used for a course on transcriptomics, covering transcriptome assembly, transcriptome functional annotation, differential expression analysis, and functional annotation data mining
Damage parameter estimation for ancient DNA
This is the codebase for Faucet, described in our manuscript: https://academic.oup.com/bioinformatics/article/34/1/147/4004871, by Roye Rozov, Gil Goldshlager, Eran Halperin, and Ron Shamir
BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy while reducing the memory space usage of two important applications: 1) finding overlapping reads and 2) read mapping. Described by Firtina et al. (published in NARGAB https://doi.org/10.1093/nargab/lqad004)
Compacted and colored de Bruijn graph construction and querying
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