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• • BioStar@biostar

  

  BioStar asked Any good bioinformatics suggestions ! 28 days ago

  Please suggest good repository of bioinformatics cources and conference. 
• • BioStar@biostar

  

  BioStar bookmarked Genomic Basis of Evolutionary Innovations (GEvol) 89 days ago

  The Priority Programme (SPP 2349) funded by German Science Foundation (DFG) started 2022: „Genomic Basis of Evolutionary Innovations (GEvol)“ GEvol is unique as it will use, for the first time, a large taxonomic group to focus on one...

  https://g-evol.uni-muenster.de/open-positions/
• • BioStar@biostar

  

  BioStar published a blog post Bioinformatics: The Bridge Between Curiosity and Discovery 101 days ago

  In the sprawling universe of modern science, bioinformatics stands as one of the most transformative and empowering fields of our time. It is where biology meets computation, where data becomes meaning, and where curiosity becomes discovery. If...
• • BioStar@biostar

  

  BioStar published a blog post Predicting Pathogen Virulence Using Bioinformatics Tools 121 days ago

  In the genomic era, the ability to predict the virulence potential of pathogens has become an indispensable part of infectious disease research. With the exponential growth of microbial genome data, bioinformatics tools now enable scientists to...
• • LEGE@lege

  

  LEGE published a blog post Courses to Get You Started with Bioinformatics 156 days ago

  Bioinformatics is now at the heart of modern biology and medicine. From decoding genomes and predicting antimicrobial resistance, to developing personalized medicine and advancing evolutionary research, computational skills are no longer optional...
• • LEGE@lege

  

  LEGE published a blog post Top Journals in Bioinformatics: How to Choose Where to Publish & Why It Matters 160 days ago

  Bioinformatics is a rapidly growing field at the intersection of biology, computer science, mathematics, and statistics. As data volumes increase, as well as the diversity of data types (genomics, proteomics, metabolomics, imaging, single‑cell...
• • LEGE@lege

  

  LEGE bookmarked WinPCA 164 days ago

  A package for windowed principal component analysis. WinPCA performs principal component analyses (PCA) in sliding windows along chromosomes. Both hard-called genotypes (input: VCF or TSV) or genotype likelihoods (input: VCF, TSV or BEAGLE)...

  https://github.com/MoritzBlumer/winpca
• • LEGE@lege

  

  LEGE bookmarked Termal: a fast and interactive terminal-based viewer for multiple sequence alignments 164 days ago

  termal, a fast, interactive, terminal-based viewer for multiple sequence alignments (MSAs), designed for use on remote systems such as high-performance computing (HPC)...

  https://github.com/sib-swiss/termal
• • LEGE@lege

  

  LEGE bookmarked HiTE: a fast and accurate dynamic boundary adjustment approach for full-length Transposable... 166 days ago

  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...

  https://github.com/CSU-KangHu/HiTE
• • LEGE@lege

  

  LEGE bookmarked PeGAS: A Comprehensive Bioinformatic Solution for Pathogenic Bacterial Genomic Analysis 186 days ago

  This is PeGAS, a powerful bioinformatic tool designed for the seamless quality control, assembly, and annotation of Illumina paired-end reads specific to pathogenic bacteria. This tool integrates state-of-the-art open-source software to provide a...

  https://github.com/liviurotiul/PeGAS
• • LEGE@lege

  

  LEGE bookmarked geNomad: Identification of mobile genetic elements 186 days ago

  geNomad is a tool that identifies virus and plasmid genomes from nucleotide sequences. It provides state-of-the-art classification performance and can be used to quickly find mobile genetic elements from genomes, metagenomes, or metatranscriptomes.

  https://portal.nersc.gov/genomad
• • LEGE@lege

  

  LEGE bookmarked Jaeger : an accurate and fast deep-learning tool to detect bacteriophage sequences 186 days ago

  Jaeger is a tool that utilizes homology-free machine learning to identify phage genome sequences that are hidden within metagenomes. It is capable of detecting both phages and prophages within metagenomic assemblies.

  https://github.com/MGXlab/Jaeger
• • LEGE@lege

  

  LEGE bookmarked dna2bit: an ultra-fast and accurate genomic distance estimation software 186 days ago

  dna2bit is a software tool developed in C++11, leveraging the capabilities of OpenMP for parallel computing and the popcount technique for efficient bit manipulation. It has been thoroughly tested using the g++ and clang compilers on both Linux and...

  https://github.com/lijuzeng/dna2bit
• • LEGE@lege

  

  LEGE bookmarked GrAnnoT 186 days ago

  GrAnnoT is an annotation transfer tool for pangenome graphs. It can transfer linear genome annotations to a pangenome graph containing the genome, and also transfer the pangenome graph's annotations on the genomes it contains. It also outputs...

  https://forge.ird.fr/diade/dynadiv/grannot
• • BioStar@biostar

  

  BioStar bookmarked GFAffix : Identifies walk-preserving shared affixes in variation graphs and collapses them into a... 190 days ago

  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.  

  https://github.com/codialab/GFAffix
• • BioStar@biostar

  

  BioStar bookmarked AlfaPang: alignment free algorithm for pangenome graph construction 190 days ago

  AlfaPang constructs variation graphs, leveraging its alignment-free and reference-free approach, based solely on intrinsic sequence properties. This design allows AlfaPang's runtime and memory usage to scale linearly with the size of input...

  https://github.com/AdamCicherski/AlfaPang
• • BioStar@biostar

  

  BioStar bookmarked Firecrawl: The Web Data API for AI - Turn entire websites into LLM-ready markdown or structured data 190 days ago

  Firecrawl is an API service that takes a URL, crawls it, and converts it into clean markdown or structured data. We crawl all accessible subpages and give you clean data for each. No sitemap required. Check out our documentation. Pst....

  https://github.com/firecrawl/firecrawl
• • BioStar@biostar

  

  BioStar bookmarked FANTASIA 198 days ago

  FANTASIA is an advanced pipeline for the automatic functional annotation of protein sequences using state-of-the-art protein language models. It integrates deep learning embeddings and in-memory similarity searches, retrieving reference vectors from...

  https://github.com/CBBIO/FANTASIA
• • Neel@neelam

  

  Neel bookmarked Jaeger : an accurate and fast deep-learning tool to detect bacteriophage sequences 204 days ago

  Jaeger is a tool that utilizes homology-free machine learning to identify phage genome sequences that are hidden within metagenomes. It is capable of detecting both phages and prophages within metagenomic assemblies. The performance of the Jaeger...

  https://github.com/MGXlab/Jaeger
• • Neel@neelam

  

  Neel bookmarked dna2bit: an ultra-fast and accurate genomic distance estimation software 204 days ago

  dna2bit: an ultra-fast and accurate genomic distance estimation software dna2bit is a software tool developed in C++11, leveraging the capabilities of OpenMP for parallel computing and the popcount technique for efficient bit manipulation. 

  https://github.com/lijuzeng/dna2bit

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