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Algorithms

How to read fasta sequences as hash using perl?

in Algorithms/Bioinformatics Programming/Perl by

This is a simple Perl script to read a multifasta file as a hash. Continue reading “How to read fasta sequences as hash using perl?” »

BETSY: A new backward-chaining expert system for automated development of pipelines in Bioinformatics

in Algorithms/Bioinformatics Programming/Softwares by

Bioinformatics analyses have become long and difficult as it involves a large number of steps implemented for data processing. Bioinformatics pipelines are developed to make this process easier, which on one hand automate a specific analysis, while on the other hand, are still limited for investigative analyses requiring changes to the parameters used in the process. Continue reading “BETSY: A new backward-chaining expert system for automated development of pipelines in Bioinformatics” »

Algorithm and workflow of miRDB

in Algorithms/miRNA Target Prediction by

As mentioned in the previous article, Micro RNAs (miRNAs) are the short endogenous RNAs (~22 nucleotides) and originate from the non-coding RNAs [1], produced in single-celled eukaryotes, viruses, plants, and animals [2]. They play significant roles in various biological processes such as degradation of mRNA [3]. Several databases exist storing a large amount of information about miRNAs, one of such databases miRBase [4] was explained in the previous article, today we will explain the algorithm of miRDB [5,6], another database for miRNA target prediction. Continue reading “Algorithm and workflow of miRDB” »

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