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PLAR: Pipeline for lncRNA annotation from RNA-seq data
By Abhi 1051 days agowww.weizmann.ac.il - Due to several requests, we are releasing an assingment of orthologs, determined using the same methods used in Hezroni et al. (BLAST, Whole Genome Alignment (WGA), and synteny). One is comparing human GENCODE genes (from GENCODE v30) to lncRNAs...OrthoVenn3: an integrated platform for exploring and visualizing orthologous data across genomes
By Abhi 571 days agoorthovenn3.bioinfotoolkits.net - OrthoVenn3 is a powerful tool for comparative genomics analysis, used as a web server for full genome comparisons, annotation, and evolutionary analysis of orthologous clusters across multiple species. It has already been used by thousands of users...BioKit: a set of tools dedicated to bioinformatics, data visualisation
By Neel 158 days agobiokit.readthedocs.io - BioKit is a set of tools dedicated to bioinformatics, data visualisation (biokit.viz), access to online biological data (e.g. UniProt, NCBI thanks to bioservices). It also contains more advanced tools related to data analysis...
A guide for complete R beginners :- Getting data into R
Last updated 3559 days ago by Archana MalhotraFor a beginner this can be is the hardest part, it is also the most important to get right. It is possible to create a vector by typing data directly into R using the combine function ‘c’ x same as x creates the vector x...ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
By Jit 2469 days agohttp://etetoolkit.org - ETE v3, featuring numerous improvements in the underlying library of methods, and providing a novel set of standalone tools to perform common tasks in comparative genomics and phylogenetics. The new features include (i) building gene-based and...lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data
By BioJoker 2188 days agogithub.com - lordFAST is a sensitive tool for mapping long reads with high error rates. lordFAST is specially designed for aligning reads from PacBio sequencing technology but provides the user the ability to change alignment parameters depending on the reads...DeepHiC: A Generative Adversarial Network for Enhancing Hi-C Data Resolution
By Rahul Nayak 1726 days agosysomics.com - DeepHiC is a GAN-based model for enhancing Hi-C data resolution. We developed this server for helping researchers to enhance their own low-resolution data by a few steps of clicks. Ab initio training could be performed according to our published...Reference Sequence Resource!
By LEGE 1164 days agowww.encodeproject.org - The ENCODE project uses Reference Genomes from NCBI or UCSC to provide a consistent framework for mapping high-throughput sequencing data. In general, ENCODE data are mapped consistently to 2 human (GRCH38, hg19) and 2 mouse...Smash: An alignment-free method to find and visualise rearrangements between pairs of DNA sequences
By Jit 3132 days agobioinformatics.ua.pt - Smash is a completely alignment-free method/tool to find and visualise genomic rearrangements. The detection is based on conditional exclusive compression, namely using a FCM (Markov model), of high context order (typically 20). For...Bioinformatics Training Material !
By BioStar 615 days agoglittr.org - Glittr is a curated list of bioinformatics training material.All material is: In a GitHub or GitLab repository Free to use Written in markdown or similar NOTE: This list of courses is selected only based on the above criteria.There...
