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Identify and Remove Outlier Samples!! https://labs.genetics.ucla.edu/horvath/CoexpressionNetwork/HumanBrainTranscriptome/Identification%20and%20Removal%20of%20Outlier%20Samples%20-%20Illumina.pdf #Re

AccNET is a Perl application that presents a new way to study the accessory genome of a given set of organisms. Using the proteomes of these organisms, AccNET create a bipartite network compatible with common network analysis platforms. AccNET...

Forest plot https://cran.r-project.org/web/packages/forestplot/vignettes/forestplot.html #R #Forest #Plot #Example #Explanation #PrettyPlot

http://www.biorxiv.org/content/early/2016/10/05/079301 #omics #genetics#sequencing #animal

R pretty scripts http://www.ncss.com/software/ncss/ncss-plots-and-graphs/ #R #Script #Plot #Idea #Graph

The MIRO (the miRNA omics) pipeline is a flexible and powerful tool for the analysis of miRNA (or more generall short RNA) expression using short-read deep sequencing data. In its present implementation MIRO is especially adapted for the analysis of...

A perl script for mapping fasta formated sequences to multiple reference sequences using one of several alignment programs. http://seq.crg.es/download/software/Miro/doc/run_Mapping.html #Perl #Script

Useful perl script http://homepages.ulb.ac.be/~dgonze/SCRIPTS/scripts.html #Perl #Script #Resource

https://github.com/gokceneraslan/awesome-deepbio #DeepLearning #Bioinformatics #DeepBio

Chromosomer – a reference-based genome arrangement tool, which rapidly builds chromosomes from genome contigs or scaffolds using their alignments to a reference genome of a closely related species. Chromosomer does not require mate-pair...

Development of cancer is driven by somatic alterations, including numerical and structural chromosomal aberrations. Currently, several computational methods are available and are widely applied to detect numerical copy number aberrations (CNAs) of...

The accurate description and annotation of structural variants can be complex.  This is due to the different resolution that variants are reported from traditional cytogenetic coordinates down to the actual base pair positions....

A recombination map has been added for all multi-locus traits. The map positions (chromosomal) for neutral markers (e.g. SNPs) and loci under selection (QTLs, deleterious mutations, DMIs) can now be specified explicitly, or set at random....

Murasaki is an anchor alignment program that is exteremely fast (17 CPU hours for whole Human x Mouse genome (with 40 nodes: 35 wall minutes), or 8 mammals in 21 CPU hours (42 wall minutes)) scalable (Arbitrarily parallelizable across multiple...