Calling variants in non-diploid systems
The main challenge associated with non-diploid variant calling is the difficulty in distinguishing between the sequencing noise (abundant in all NGS platforms) and true...1096 days ago
QuasR: Quantification and annotation of short reads in R
The QuasR package (short for Quantify and annotate short reads...at2 package). The package aims to cover the whole analysis workflow of typical high thro...ngle R script can contain all steps of a complete analysis, making it simple to document...1048 days ago
Kmer: a suite of tools for DNA sequence analysis
More at https://help.rc.ufl.edu/doc/Kmer This also includes: A2Amapper: ATAC, Ass...n addition to providing random access to the base level, it includes several analysis functions. Meryl:...1044 days ago
RNA-Seq differential expression work flow using DESeq2
One of the aim of RNAseq data analysis is the detection of differentially expressed genes. The package DESeq2 provides methods to test for differential expression analysis.1038 days ago
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RNA-seq workflow: gene-level exploratory analysis and differential expression
Here we walk through an end-to-end gene-level RNA-seq differential expression w...transcripts, and prepare gene-level count datasets for downstream analysis. We will perform exploratory data analysis (EDA) for quality assessment...991 days ago
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GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary name...875 days ago
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