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• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh posted to the wire 2867 days ago

  Louvain algorithm https://neo4j.com/docs/graph-algorithms/current/algorithms/louvain/ #Louvain #algorithm
• • Rahul Nayak@rahul

  

  Rahul Nayak posted to the wire 2867 days ago

  Long reads: their purpose and place https://academic.oup.com/hmg/article/27/R2/R234/4996216 #Long #reads #informations
• • Neel@neelam

  

  Neel bookmarked MetaPlotR: a Perl/R pipeline for plotting metagenes of nucleotide modifications and other... 2868 days ago

  An increasing number of studies are mapping protein binding and nucleotide modifications sites throughout the transcriptome. Often, these sites cluster in certain regions of the transcript, giving clues to their function. Hence, it is informative to...

  https://github.com/olarerin/metaPlotR
• • Jit@jit.aber

  

  Jit bookmarked Referee: Genome assembly quality scores 2869 days ago

  Modern genome sequencing technologies provide a succint measure of quality at each position in every read, however all of this information is lost in the assembly process. Referee summarizes the quality information from the reads that map to a site...

  https://gwct.github.io/referee/#
• • Rahul Nayak@rahul

  

  Rahul Nayak published a news post Illumina to Acquire Pacific Biosciences for Approximately $1.2 Billion ! 2871 days ago

  https://www.illumina.com/company/news-center/press-releases/2018/2374913.html
• • Jit@jit.aber

  

  Jit posted to the wire 2871 days ago

  Rename the fasta header perl -ane 'if(/\>/){$a++;print ">LR$a\n"}else{print;}' allPacBio_clean.fa > allPacBio_clean_shortName.fa #fasta #header #rename
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh bookmarked Ancestral Genomes: a resource for reconstructed ancestral genes and genomes across the tree of life 2871 days ago

   Ancestral Genomes (http://ancestralgenomes.org) is a resource for comprehensive reconstructions of these ‘fossil genomes’. Comprehensive sets of protein-coding genes have been reconstructed for 78 genomes of now-extinct species...

  http://ancestralgenomes.org/
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh bookmarked swgis v2.0 : a seqword genomic island sniffer 2872 days ago

  swgis v2.0 is the modified version of the seqword genomic island sniffer. this version is specifically optimized for predicting genomic islands in eukaryotic genomes. swgis v2.0 was tested on several eukaryotic species of different lineages....

  http://eugi.bi.up.ac.za/eugi_download_swgis.php
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh commented on the blog Important Journals, Blogs and Forums for Bioinformaticians 2872 days ago

  The Open Bioinformatics Journal https://www.benthamopen.com/TOBIOIJ/ #Note impact factor ~4 ... ??? 
• • Neel@neelam

  

  Neel posted to the wire 2873 days ago

  Bioinformatics jobs at CUJ, Jharkhand http://www.cuj.ac.in/downloads/advtbuilderDLS25oct2018.pdf #Job
• • Jit@jit.aber

  

  Jit commented on a page titled Tools for Searching Repeats And Palindromic Sequences 2873 days ago

  I wrote a tools "Palindromer" to find palindromes in whole genome sequences. You can try https://github.com/jnarayan81/Palindromer . I am happy to improve it, if any features are requested. 
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh commented on a bookmark PhenoGram 2874 days ago

  https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4015356/
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh commented on the blog Tools to detect synteny blocks regions among multiple genomes 2874 days ago

  It is recommended to used genomes (N50 > 1Mb) for synteny analysis https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2026-4
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh bookmarked Synima: a Synteny imaging tool for annotated genome assemblies 2874 days ago

  Synima written in Perl, which uses the graphical features of R. Synima takes orthologues computed from reciprocal best BLAST hits or OrthoMCL, and DAGchainer, and outputs an overview of genome-wide synteny in PDF. Each of these programs are included...

  https://github.com/rhysf/Synima
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh bookmarked VGSC: A Web-Based Vector Graph Toolkit of Genome Synteny and Collinearity 2874 days ago

  VGSC, the Vector Graph toolkit of genome Synteny and Collinearity, and its online service, to visualize the synteny and collinearity in the common graphical format, including both raster (JPEG, Bitmap, and PNG) and vector graphic (SVG, EPS, and...

  https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4783527/
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh posted to the wire 2874 days ago

  Visualize the chromosomes http://visualization.ritchielab.org/ #PhenoGram
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh commented on a bookmark R and Bioconductor Tutorial in the group R and Bioconductor 2874 days ago

  R graphics https://bioconductor.org/packages/devel/bioc/vignettes/chromPlot/inst/doc/chromPlot.pdf #chromPlot
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh posted to the wire 2874 days ago

  http://www.bioconductor.org/packages/release/bioc/vignettes/Gviz/inst/doc/Gviz.pdf #Plot #Chr
• • Jit@jit.aber

  

  Jit posted to the wire 2875 days ago

  Bash scripting cheatsheet https://devhints.io/bash #Bash #CheatSheet #Script
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh uploaded the file Biologist versus computational biologist ! 2875 days ago

  This is how it work :)

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