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• • Jit@jit.aber

  

  Jit bookmarked chromosight: Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps 2364 days ago

  Python package to detect chromatin loops (and other patterns) in Hi-C contact maps. Stable version with pip: pip3 install --user chromosight Stable version with conda: conda install -c bioconda -c conda-forge chromosight or, if you want...

  https://github.com/koszullab/Chromosight
• • Shruti Paniwala@shruti

  

  Shruti Paniwala bookmarked Magic-BLAST 2367 days ago

  Magic-BLAST is a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome. Each alignment optimizes a composite score, taking into account simultaneously the two reads of a pair, and in case of...

  https://ncbi.github.io/magicblast/
• • Radha Agarkar@radhaagarkar

  

  Radha Agarkar created a new bio-script Check os version in Linux ! 2367 days ago
• • Jit@jit.aber

  

  Jit posted to the wire 2367 days ago

  MyBib is a nice alternative for bibliography https://www.mybib.com/ #MyBib #Citation #Referencing
• • Jit@jit.aber

  

  Jit bookmarked ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis 2369 days ago

  ProteoClade is a Python library for taxonomic-based annotation and quantification of bottom-up proteomics data. It is designed to be user-friendly, and has been optimized for speed and storage requirements. ProteoClade helps you analyze two...

  https://github.com/HeldLab/ProteoClade
• • Jit@jit.aber

  

  Jit posted to the wire 2369 days ago

  As of 2020-03-11, 445 strains of virus have been sampled, with a total of 285 haplotypes. #nCov #Corona
• • Jit@jit.aber

  

  Jit created a new bio-script Basic docker commands ! 2369 days ago

  Comments

  • • Jit@jit.aber

    

    Jit 1832 days ago

    Attached the running docker 

    Instead of using -i or -t options, use the attach command to connect to a running container:

    docker attach container_id

  • • Jit@jit.aber

    

    Jit 1832 days ago

    Start the docker container

    docker start [options] container_id

    Stop the docker container

    docker stop --time=20 container_id

    Kill a docker container

    docker kill [option] container_id
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary bookmarked Phytozome v12.1: plant science community hub for accessing palnts genomic data 2370 days ago

  Phytozome, the Plant Comparative Genomics portal of the Department of Energy's Joint Genome Institute, provides JGI users and the broader plant science community a hub for accessing, visualizing and analyzing JGI-sequenced plant genomes, as well as...

  https://phytozome.jgi.doe.gov/pz/portal.html
• • Jit@jit.aber

  

  Jit commented on a bookmark collinearity: scripts to parse and analyse MCScanX collinearity output 2370 days ago

  This python script is by far the best for MCscan https://github.com/tanghaibao/jcvi/wiki/MCscan-(Python-version)
• • Neel@neelam

  

  Neel commented on the blog Important Journals, Blogs and Forums for Bioinformaticians 2370 days ago

  Bioinformatics tools and packages is also accepted in G3 journal https://www.g3journal.org/content/software-and-data-resources-0
• • Jit@jit.aber

  

  Jit bookmarked JCVI:Python utility libraries on genome assembly, annotation and comparative genomics 2370 days ago

  Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics. https://github.com/tanghaibao/jcvi More at https://github.com/tanghaibao/jcvi/wiki

  https://github.com/tanghaibao/jcvi
• • Neel@neelam

  

  Neel published a blog post Coronavirus COVID ‐19 Testing Sites In India 2371 days ago

  Stay at home if you have coronavirus symptoms
• • BioStar@biostar

  

  BioStar bookmarked Apollo: A Sequencing-Technology-Independent, Scalable, and Accurate Assembly Polishing Algorithm 2371 days ago

  Apollo is an assembly polishing algorithm that attempts to correct the errors in an assembly. It can take multiple set of reads in a single run and polish the assemblies of genomes of any size. Described by Firtina et al. (preliminary version...

  https://github.com/CMU-SAFARI/Apollo
• • Jit@jit.aber

  

  Jit created a new bio-script Commands to install Statistics::R module in Ubuntu ! 2371 days ago
• • Jit@jit.aber

  

  Jit commented on a page titled Installing Bio::SCF perl module 2371 days ago

  In Ubuntu, you can try the following command to install perl packages: sudo apt-get install libbio-scf-perlsudo apt-get install -y bioperlsudo apt-get install -y libstatistics-distributions-perlsudo apt-get install -y libterm-progressbar-simple-perl
• • Jit@jit.aber

  

  Jit commented on a page titled Installing Bio::SCF perl module 2371 days ago

  The module is updated https://launchpad.net/ubuntu/+source/libbio-scf-perl You can install it in Ubuntu as follows: sudo apt-get install libbio-scf-perl Dont forgot to install all deps first.
• • Jit@jit.aber

  

  Jit created a new bio-script Commands to install conda in Ubuntu ! 2371 days ago
• • Jit@jit.aber

  

  Jit created a new bio-script Pack a perl program with their dependencies on Ubuntu ! 2371 days ago
• • Jit@jit.aber

  

  Jit posted to the wire 2371 days ago

  PAR::Packer to pack your perl program $ sudo apt install libpar-packer-perl #Perl #Pack #PAR
• • Neel@neelam

  

  Neel bookmarked GSP4PDB: a web tool to visualize, search and explore protein-ligand structural patterns 2372 days ago

  GSP4PDB is a user-friendly and efficient application to search and discover new patterns of protein-ligand interaction. GSP4PDB is part of the services provided by the Bioinformatic Group of the University of...

  http://gdblab.com/gsp4pdb/gsp4pdb2/

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