Neel
Bioinformatics Beginner
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Software and Tools to detect structure variation with long reads !!
By Archana Malhotra 2810 days agoStructural variation caller tools using long readsFastq format
By Jit 2761 days agoen.wikipedia.org - FASTQ format is a text-based format for storing both a biological sequence (usually nucleotide sequence) and its corresponding quality scores. Both the sequence letter and quality score are each encoded with a...GAM-NGS: genomic assemblies merger for next generation sequencing
By Jit 2745 days agogithub.com - GAM-NGS is a tool able to merge two or more assemblies in order to improve contiguity and correctness. It can be used on all NGS-based assembly projects and it shows its full potential with multi-library Illumina-based projects. With more than 20...DIYA: a bacterial annotation pipeline for any genomics lab
By Jit 2703 days agosourceforge.net - DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and...MeDuSa: a multi-draft based scaffolder
By Abhimanyu Singh 2474 days agogithub.com - MeDuSa (Multi-Draft based Scaffolder), an algorithm for genome scaffolding. MeDuSa exploits information obtained from a set of (draft or closed) genomes from related organisms to determine the correct order and orientation of the contigs. MeDuSa...pbalign: maps PacBio reads to reference sequences and saves alignments to a BAM file
By Jit 2375 days agogithub.com - pbalign aligns PacBio reads to reference sequences, filters aligned reads according to user-specific filtering criteria, and converts the output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5) format. The output Compare HDF5 file...ASAR: Advanced metagenomic Sequence Analysis in R
By Jit 2329 days agogithub.com - An interactive data analysis tool for selection, aggregation and visualization of metagenomic data is presented. Functional analysis with a SEED hierarchy and pathway diagram based on KEGG orthology based upon MG-RAST annotation results is...
List of non-commercial NGS genotype-calling software
Last updated 2298 days ago by Jit Comments (1)Meaningful analysis of next-generation sequencing (NGS) data, which are produced extensively by genetics and genomics studies, relies crucially on the accurate calling of SNPs and genotypes. Recently developed statistical methods both improve and...You can't hide from Genome Hackers
By Neel 2233 days agoYoung computational biologist named Yaniv Erlich shocked the research world by showing it was possible to unmask the identities of people listed in anonymous genetic databases using only an Internet connection
