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• • LEGE@lege

  

  LEGE asked Alienomics error, how to fix it ! 230 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 231 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 231 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... 233 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 ! 237 days ago
• • Abhi@abhinav

  

  Abhi posted to the wire 238 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 245 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 245 days ago

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

  

  LEGE published a news post Cleaner BLAST Databases for More Accurate Results 246 days ago

  Removing contaminated sequences using NCBI quality assurance tools
• • Abhi@abhinav

  

  Abhi bookmarked MIKE: an ultrafast, assembly-, and alignment-free approach for phylogenetic tree construction 261 days ago

  MIKE (MinHash-based k-mer algorithm). This algorithm is designed for the swift calculation of the Jaccard coefficient directly from raw sequencing reads and enables the construction of phylogenetic trees based on the resultant Jaccard...

  https://github.com/Argonum-Clever2/mike
• • Abhi@abhinav

  

  Abhi answered the question What is the p-value? 264 days ago

  P-value is often discussed when dealing with science. Especially in scientific journals, you will surely find mentions of the p-value. But what is it, really? Well, if I were to explain it in very simple and concise terms, I would say:“Imagine...
• • BioStar@biostar

  

  BioStar asked What is the p-value? 264 days ago
• • BioStar@biostar

  

  BioStar bookmarked A web-based tool for sequence alignment statistics and innovative visualization 265 days ago

  AlignStatPlot, a new R package and online tool that is well-documented and easy-to usefor MSA and post-MSA analysis. This tool performs both traditional and cutting-edge analy-ses on sequencing data and generates new visualisation methods for MSA...

  https://bioinformatics.um6p.ma/AlignStatPlot/
• • BioStar@biostar

  

  BioStar published a blog post Mosquito species known for transmitting the Dengue virus 266 days ago

  Here is a list of mosquito species known for transmitting the Dengue virus along with essential and applied information about each species:
• • LEGE@lege

  

  LEGE published a blog post Entire Human Genome Sequencing ! 267 days ago

  Cost-effective whole human genome sequencing has revolutionized the landscape of genetic research and personalized medicine by making comprehensive genetic analysis accessible to a wider population. Through advancements in sequencing technologies,...
• • LEGE@lege

  

  LEGE bookmarked Minda: a tool for evaluating structural variant (SV) callers 269 days ago

  Minda is a tool for evaluating structural variant (SV) callers that standardizes VCF records for compatibility with both germline and somatic SV callers, benchmarks against a single VCF input file, or benchmarks against an ensemble call set...

  https://github.com/KolmogorovLab/minda
• • LEGE@lege

  

  LEGE bookmarked Severus: a somatic structural variation (SV) caller for long reads 269 days ago

  Severus is a somatic structural variation (SV) caller for long reads (both PacBio and ONT). It is designed for matching tumor/normal analysis, supports multiple tumor samples, and produces accurate and complete somatic and germline calls. Severus...

  https://github.com/KolmogorovLab/Severus
• • LEGE@lege

  

  LEGE bookmarked GraphPath: A graph attention model for molecular stratification with interpretability based on the... 272 days ago

  Achieving accurate and interpretable clinical predictions requires paramount attention to thoroughly characterizing patients at both the molecular and biological pathway levels. In this paper, we present GraphPath, a biological knowledge-driven...

  https://github.com/amazingma/GraphPath
• • LEGE@lege

  

  LEGE bookmarked ExRec: Exclusion of Recombined DNA 272 days ago

  ExRec (Exclusion of Recombined DNA) is a Python pipeline that implements the four-gamete test to filter out recombined DNA sites from up to thousands of DNA sequence loci. The pipeline consists of five standalone applications: the first two convert...

  https://github.com/Sammccarthypotter/ExRec
• • LEGE@lege

  

  LEGE created a new bio-script Python script to parse GFF file 272 days ago

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