BOL

Latest activity

• • Abhi@abhinav

  

  Abhi created a new bio-script Update the Linux OS ! 1060 days ago
• • Jit@jit.aber

  

  Jit created a new bio-script Update conda version ! 1063 days ago
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary bookmarked VCF2PopTree: a client-side software to construct population phylogeny from genome-wide SNPs 1063 days ago

  VCF2PopTree is a client-side software written in Javascript and it runs purely within the user’s computer/browser.  VCF2PopTree is compatible with all population browsers including Chrome, Opera, Edge and Firefox and works equally...

  https://github.com/sansubs/vcf2pop
• • Neel@neelam

  

  Neel published a blog post Useful Bioinformatics Analysis Tools ! 1064 days ago

  Bioinformatics tools
• • Jit@jit.aber

  

  Jit created a new bio-script Bowtie2 Mapping ! 1067 days ago
• • Jit@jit.aber

  

  Jit answered the question bowtie2-align-s: error while loading shared libraries 1070 days ago

  You need to update tbb  update: I was able to get around this by just running the following in a new env:conda install -c biobakery biobakery_workflowsconda install tbb=2020.2
• • Abhi@abhinav

  

  Abhi asked bowtie2-align-s: error while loading shared libraries 1070 days ago

  /home/emilyw/.conda/envs/shotgun_134/bin/bowtie2-align-s: error while loading shared libraries: libtbb.so.2: cannot open shared object file: No such file or directory (ERR): Description of arguments failed! Exiting now ... How to resolve this...
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary bookmarked vcf2maf convert ! 1071 days ago

  To convert a VCF into a MAF, each variant must be mapped to only one of all possible gene transcripts/isoforms that it might affect. But even within a single isoform, a Missense_Mutation close enough to a Splice_Site, can be labeled as either in MAF...

  https://github.com/mskcc/vcf2maf
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary bookmarked maftools 1071 days ago

  With advances in Cancer Genomics, Mutation Annotation Format (MAF) is being widely accepted and used to store somatic variants detected. The Cancer Genome Atlas Project has sequenced over 30 different cancers with sample size of each cancer type...

  https://github.com/PoisonAlien/maftools
• • Abhi@abhinav

  

  Abhi bookmarked UniqueKmer: Generate unique KMERs for every contig in a FASTA file 1071 days ago

  Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consisted of k-mer keys (i.e. ATCGATCCTTAAGG) that are only presented in one contig, but not presented in any other contigs (for both forward and reverse strands). This tool...

  https://github.com/OpenGene/UniqueKMER
• • Abhi@abhinav

  

  Abhi created a page Special Nucleotide Characters / Symbols ! 1071 days ago

  Nucleotide symbols Nucleotide symbol Full Name A Adenine C Cytosine G Guanine T Thymine U Uracil R Guanine / Adenine (purine) Y Cytosine / Thymine (pyrimidine) K Guanine /...
• • Abhi@abhinav

  

  Abhi posted to the wire 1071 days ago

  Special nucleotide characters http://www.hgmd.cf.ac.uk/docs/nuc_lett.html #Special #Nucleotide
• • Abhi@abhinav

  

  Abhi bookmarked Peregrine & SHIMMER Genome Assembly Toolkit 1072 days ago

  Peregrine is a fast genome assembler for accurate long reads (length > 10kb, accuracy > 99%). It can assemble a human genome from 30x reads within 20 cpu hours from reads to polished consensus. It uses Sparse HIereachical MimiMizER (SHIMMER)...

  https://github.com/cschin/Peregrine
• • Abhi@abhinav

  

  Abhi bookmarked Rules for Pango Lineage ! 1074 days ago

  All the rules to classify a Lineage ! https://www.pango.network/the-pango-nomenclature-system/statement-of-nomenclature-rules/

  https://www.pango.network/the-pango-nomenclature-system/statement-of-nomenclature-rules/
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary posted to the wire 1075 days ago

  A modeling study predicts that there is a “realistic possibility” that B.1.617.2 is 60% more transmissible than the Alpha variant (B.1.1.7).
• • Abhi@abhinav

  

  Abhi bookmarked Corona Virus Genome and Data Download ! 1075 days ago

  Genes and its related metadata could be found on https://www.ncbi.nlm.nih.gov/datasets/coronavirus/genomes/

  https://www.ncbi.nlm.nih.gov/datasets/coronavirus/genomes/
• • Abhi@abhinav

  

  Abhi bookmarked Corona Virus Literature ! 1075 days ago

  LitCovid is a curated literature hub for tracking up-to-date scientific information about the 2019 novel Coronavirus. It is the most comprehensive resource on the subject, providing a central access to 201482 (and growing)...

  https://www.ncbi.nlm.nih.gov/research/coronavirus/
• • Jit@jit.aber

  

  Jit bookmarked Refseq viraal genome sequences ! 1076 days ago

  List of all viruses on NCBI  https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/

  https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/
• • Jit@jit.aber

  

  Jit bookmarked fastv - detect virus 1076 days ago

  fastv is an ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. It detects microbial sequences from FASTQ data, generates JSON reports and visualizes the result in HTML reports. This tool can be used to detect...

  https://github.com/OpenGene/fastv
• • Jit@jit.aber

  

  Jit bookmarked UniqueKMER 1076 days ago

  Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consisted of k-mer keys (i.e. ATCGATCCTTAAGG) that are only presented in one contig, but not presented in any other contigs (for both forward and reverse strands).

  https://github.com/OpenGene/UniqueKMER

• « Previous
• 17
• 18
• 19
• 20
• 21
• 22
• 23
• 24
• 25
• 26
• 27
• Next »