BOL

Latest activity

• • Abhi@abhinav

  

  Abhi commented on a bookmark LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data 165 days ago

  Detail paper here https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8111061/
• • Abhi@abhinav

  

  Abhi published a blog post Bioinformatic tools for pathogens informatics at CVR 165 days ago

  https://bioinformatics.cvr.ac.uk/software/
• • Abhi@abhinav

  

  Abhi bookmarked quarTeT: a telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat... 165 days ago

  quarTeT is a collection of tools for T2T genome assembly and basic analysis in automatic workflow.Task include: AssemblyMapper : reference-guided genome assembly GapFiller : long-reads based gap filling TeloExplorer : telomere...

  http://www.atcgn.com:8080/quarTeT/home.html
• • LEGE@lege

  

  LEGE posted to the wire 168 days ago

  #NCBI is planning to push some updated on #taxonomy #classification https://ncbiinsights.ncbi.nlm.nih.gov/2024/06/04/changes-ncbi-taxonomy-classifications/
• • LEGE@lege

  

  LEGE bookmarked AMR Database ! 169 days ago

  ARG-ANNOT. PMID: 24145532 CARD. PMID: 23650175 MEGARes PMID: 27899569 NCBI BioProject: PRJNA313047 plasmidfinder PMID: 24777092 resfinder. PMID: 22782487 VFDB. PMID: 26578559 SRST2's version...

  https://github.com/sanger-pathogens/ariba/wiki/Task%3A-getref
• • LEGE@lege

  

  LEGE bookmarked Seeing Theory and Learn 170 days ago

  Seeing Theory was created by Daniel Kunin while an undergraduate at Brown University. The goal of this website is to make statistics more accessible through interactive visualizations (designed using Mike Bostock’s JavaScript library D3.js).

  https://seeing-theory.brown.edu/
• • LEGE@lege

  

  LEGE bookmarked Powerful books for learning data analysis with R 177 days ago

  R is powerful tool for data analysis, visualization, and machine learning. And it costs $0 to use! Here are six FREE books you can use to learn R...

  https://r-graphics.org/
• • Abhi@abhinav

  

  Abhi bookmarked Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes 189 days ago

  Bactopia is a flexible pipeline for complete analysis of bacterial genomes. The goal of Bactopia is to process your data with a broad set of tools, so that you can get to the fun part of analyses quicker! Bactopia can be split into two main...

  https://github.com/bactopia/bactopia
• • Abhi@abhinav

  

  Abhi bookmarked The ATCC Genome Portal 189 days ago

  The ATCC Genome Portal (AGP, https://genomes.atcc.org/) is a database of authenticated genomes for bacteria, fungi, protists, and viruses held in ATCC’s biorepository. It now includes 3,938 assemblies (253% increase) produced under ISO...

  https://genomes.atcc.org/
• • LEGE@lege

  

  LEGE published a blog post Hypothesis testing ! 190 days ago

  What is a hypothesis test?
• • Abhi@abhinav

  

  Abhi posted to the wire 191 days ago

  Dengue Virus Genome https://www.ncbi.nlm.nih.gov/genomes/GenomesGroup.cgi?taxid=12637 #Dengue
• • LEGE@lege

  

  LEGE created a new bio-script Commands to create conda env 192 days ago
• • LEGE@lege

  

  LEGE asked Alienomics error, how to fix it ! 196 days ago

  (perlENV) [raj@hn1 bin]$ ./alienomics_v0.3.2 Can't load '/tmp/par-6a6e61726179616e/cache-b3e30287a6ce7f2b069c63e57901fcbf1d6597d7/5b8c5ac2.so' for module POSIX: /lib64/libm.so.6: version `GLIBC_2.23' not found (required by...
• • LEGE@lege

  

  LEGE bookmarked ContigExtender: a new approach to improving de novo sequence assembly for viral metagenomics data 197 days ago

  ContigExtender, was developed to extend contigs, complementing de novo assembly. ContigExtender employs a novel recursive Overlap Layout Candidates (r-OLC) strategy that explores multiple extending paths to achieve longer and highly accurate...

  https://github.com/dengzac/contig-extender
• • LEGE@lege

  

  LEGE bookmarked Alvis: a tool for contig and read ALignment VISualisation and chimera detection 197 days ago

  Alvis, a simple command line tool that can generate visualisations for a number of common alignment analysis tasks. Alvis is a fast and portable tool that accepts input in a variety of alignment formats and will output production ready vector...

  https://github.com/SR-Martin/alvis
• • LEGE@lege

  

  LEGE bookmarked Synorth: exploring the evolution of synteny and long-range regulatory interactions in vertebrate... 199 days ago

  Genomic regulatory blocks are chromosomal regions spanned by long clusters of highly conserved noncoding elements devoted to long-range regulation of developmental genes, often immobilizing other, unrelated genes into long-lasting syntenic...

  http://synorth.genereg.net/
• • LEGE@lege

  

  LEGE created a new bio-script Python script to finds extact similar sequence between two multi fasta files ! 203 days ago
• • Abhi@abhinav

  

  Abhi posted to the wire 204 days ago

  Use a Python Package to Access the RCSB #PDB Search API https://www.rcsb.org/news/feature/65a1acf5c76ca3abcc925d0b
• • LEGE@lege

  

  LEGE bookmarked Virus Bioinformatics Tools 211 days ago

  Bioinformatics tools play a crucial role in studying viruses, enabling researchers to analyze their genetic makeup, structure, function, and evolution. Here are some commonly used bioinformatics tools for virus...

  https://evirusbioinfc.notion.site/18e21bc49827484b8a2f84463cb40b8d?v=92e7eb6703be4720abf17a901bc9a947
• • LEGE@lege

  

  LEGE published a blog post 16sRNA Database Download 211 days ago

  Downloading 16S rRNA databases can be crucial for various bioinformatics analyses, especially in microbiome research.

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