Jit
Enthusiast computational biologist with business dream !!!
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Step-by-Step Guide to Running Genome Assembly
By Abhi 449 days agoGenome assembly is a powerful process that transforms raw sequencing data into a coherent representation of an organism’s genome. By following this step-by-step guide, you can successfully assemble genomes and uncover valuable biological insights....DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
By Jit 3035 days agohttps://dfast.nig.ac.jp/ - We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome submission to public sequence databases. DFAST was originally started as an on-line annotation server, and to date, over 7,000 jobs have been processed since its...Comparative genomics visualisation tools !
By Neel 1479 days agocmdcolin.github.io - Comparative genomics visualisation tools !Jvarkit : Java utilities for Bioinformatics
By Jit 2829 days agolindenb.github.io - Collection of Java tool kits for bioinformatics works: Jvarkit : Java utilities for BioinformaticsCoLoRMap: Correcting Long Reads by Mapping short reads
By Jit 2756 days agogithub.com - Second generation sequencing technologies paved the way to an exceptional increase in the number of sequenced genomes, both prokaryotic and eukaryotic. However, short reads are difficult to assemble and often lead to highly fragmented assemblies....LoRMA: a tool for correcting sequencing errors in long reads such those produced by Pacific...
By Jit 3552 days agowww.cs.helsinki.fi - LoRMA is a tool for correcting sequencing errors in long reads such those produced by Pacific Biosciences sequencing machines. Publication: L. Salmela, R. Walve, E. Rivals, and E. Ukkonen: Accurate selfcorrection of errors in long reads using de...ACANA: An accurate and consistent alignment tool for DNA sequences
By Jit 3013 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...Flye: Fast and accurate de novo assembler for single molecule sequencing reads
By Rahul Nayak 2436 days agogithub.com - Flye is a de novo assembler for single molecule sequencing reads, such as those produced by PacBio and Oxford Nanopore Technologies. It is designed for a wide range of datasets, from small bacterial projects to large mammalian-scale assemblies. The...Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
By BioStar 2222 days agogithub.com - Rcorrector has an accuracy higher than or comparable to existing methods, including the only other method (SEECER) designed for RNA-seq reads, and is more time and memory efficient. With a 5 GB memory footprint for 100 million reads, it can be run...HiTE: a fast and accurate dynamic boundary adjustment approach for full-length Transposable...
By LEGE 168 days agogithub.com - HiTE is a Python software that uses a dynamic boundary adjustment approach to detect and annotate full-length Transposable Elements in Genome Assemblies. In comparison to other tools, HiTE demonstrates superior performance in detecting a...
