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Latest activity

• • Jit@jit.aber

  

  Jit created a new bio-script FASTQ to FASTA 1086 days ago
• • Jit@jit.aber

  

  Jit bookmarked UCSC SARS-CoV-2 Genome Browser 1086 days ago

  The UCSC SARS-CoV-2 Genome Browser (https://genome.ucsc.edu/covid19.html) is an adaptation of our popular genome-browser visualization tool for this virus, containing many annotation tracks and new features, including conservation with similar...

  https://www.nature.com/articles/s41588-020-0700-8
• • Jit@jit.aber

  

  Jit created a new bio-script Compile CPP to exe 1086 days ago
• • Abhi@abhinav

  

  Abhi created a new bio-script Extract the sequences with IDs ! 1087 days ago
• • Abhi@abhinav

  

  Abhi created a new bio-script Perl script to rename the fasta file ! 1094 days ago
• • Abhi@abhinav

  

  Abhi bookmarked ChIPBase: open database for studying the transcription factor binding sites and motifs 1094 days ago

  ChIPBase v2.0 is an open database for studying the transcription factor binding sites and motifs, and decoding the transcriptional regulatory networks of lncRNAs, miRNAs, other ncRNAs and protein-coding genes from ChIP-seq data. Our database...

  https://rna.sysu.edu.cn/chipbase/
• • Abhi@abhinav

  

  Abhi bookmarked GEnView: A phylogeny based comparative genomics software to analyze the genetic environment of genes 1095 days ago

  A phylogeny based comparative genomics software to analyze the genetic environment of genes. The user can select one or several taxa and provide one or several reference protein(s). Genomes and plasmids (based on user choice) will be downloaded from...

  https://github.com/EbmeyerSt/GEnView
• • Abhi@abhinav

  

  Abhi bookmarked A guide to machine learning for biologists 1095 days ago

  Because of the increasing size and inherent complexity of biological data, there has been an increase in the application of machine learning in biology to create useful and predictive models of the underlying biological processes. All machine...

  https://www.nature.com/articles/s41580-021-00407-0
• • Abhi@abhinav

  

  Abhi created a new bio-script Update the Linux OS ! 1096 days ago
• • Jit@jit.aber

  

  Jit created a new bio-script Update conda version ! 1098 days ago
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary bookmarked VCF2PopTree: a client-side software to construct population phylogeny from genome-wide SNPs 1098 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 ! 1099 days ago

  Bioinformatics tools
• • Jit@jit.aber

  

  Jit created a new bio-script Bowtie2 Mapping ! 1103 days ago
• • Jit@jit.aber

  

  Jit answered the question bowtie2-align-s: error while loading shared libraries 1106 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 1106 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 ! 1106 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 1106 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 1106 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 ! 1106 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 1106 days ago

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

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