Comment on "Ten International Scholarships for Indian Biotechnology and Bioinformatics Students"
Useful books for Indian scholarships https://indiabioscience.org/media/articles/GRANTS-BOOK-FINALVer_09111.pdf1314 days ago
Comment on "Important Journals, Blogs and Forums for Bioinformaticians"
IEEE Transactions on Knowledge and Data Engineering accepts bioinformatics and algorithms manuscripts https://www.computer.org/csdl/journal/tk1330 days ago
Comment on "URMAP, an ultra-fast read mapper"
map command Maps unpaired reads to a reference genome. The reference genom...s not needed. Reads must be in FASTQ format or gzip-compress...required to read the larger uncompressed file. OptionsThe F...ut. Use /dev/stdout or "-" (minus sign) if you want to pipe o...1344 days ago
Comment on "Sibelia: A comparative genomics tool"
Basic usage =========== In this manual it is assumed that "Sibelia" is properly installed and the directory wit...xamples/Sibelia" dir were taken from [5, 6]. Note that you c...s located on the positive strand, then start < end, other...arameter if it is set, where Kn is the value of K used for th...1345 days ago
Comment on "Mugsy: multiple whole genome alignment tool"
Set up the environment bash source /path/to/install/mugsyenv.sh Run mugsy... mugsy --directory /data/...3.fasta This example will align three genomes and output a fi...e name in the output files (eg. genome1 from genome1.fsa). Header...1346 days ago
Comment on "Basic command-line to run BLAST"
Original paper https://www.sciencedirect.com/science/article/pii/S00222836058036021356 days ago
Comment on "KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies"
Using KAT again (You will need the modules: KAT/2.1.1 and gnuplot/4.6.5) – we can plot the kmer content of the assembly compared...hing we need to do is to combine the reads into a single file...tput files to you computer using scp and look at th...1397 days ago
Comment on "REAPR: a universal tool for genome assembly evaluation"
Reapr is a tool trying to find explicit errors in the assembly based on incongruently mapped reads. I...ler (but hopefully correct) contigs. Reapr runs pretty slowly...ut is good output, since the only output from the command is...fectmap to get information on how to create a perfect ma...1397 days ago
Comment on "Important Journals, Blogs and Forums for Bioinformaticians"
Biology Direct journals accept short notes/ application notes https://biologydirect.biomedcentral.com/submission-guidelines/aims-and-scope1402 days ago
Comment on "Important Journals, Blogs and Forums for Bioinformaticians"
NAR Web server accept tools https://academic.oup.com/nar/issue/43/W11402 days ago