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TRAPLINE a standardized and automatic pipeline for RNA sequencing data Investigation, analysis and annotation.
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BioJupies is an online-based platform that provides finish RNA-seq Examination Alternative from no cost alignment support to a whole knowledge Assessment report sent as an interactive Jupyter Notebook.
ReadXplorer ReadXplorer is often a freely obtainable thorough exploration and evaluation Device for NGS facts. It extracts and provides quantity and high quality actions to each alignment so as to classify the mapped reads.
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casper is usually a Bioconductor package deal to quantify expression at the isoform level. It brings together making use of insightful information summaries, flexible estimation of experimental biases and statistical precision concerns which (reportedly) provide considerable reductions in estimation error.
iReckon iReckon is an algorithm for the simultaneous isoform reconstruction and abundance estimation. Besides modelling novel isoforms, multi-mapped reads and browse duplicates, this technique takes under consideration the possible existence of unspliced pre-mRNA and intron retention. iReckon only demands a list of transcription start off and end internet sites, but can use acknowledged full isoforms to enhance sensitivity.
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AlignerBoost is a generalized software toolkit for boosting Future-Gen sequencing mapping precision employing a Bayesian-based mostly mapping high quality framework.
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