Biostatistics
Biostats materials ... Biostatistics is an innovative field that involves the design, analysis, and interpretation of data for studies in public health and medicine. Biostatistics experts arrive at conclusions about disease and health risks by evaluating and applying mathematical and statistical formulas to the factors that impact health.
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MEME suite
By Bulbul 2922 days agohttp://meme-suite.org/ - Motif based sequence analysis suits The MEME Suite allows the biologist to discover novel motifs in collections of unaligned nucleotide or protein sequences, and to perform a wide variety of other motif-based analyses. The MEME Suite...Progressive Cactus
By Jit 2897 days agogithub.com - v0.0 by Glenn Hickey (hickey@soe.ucsc.edu) Progressive Cactus is a whole-genome alignment package. Requirements git gcc 4.2 or newer python 2.7 wget 64bit processor and build environment 150GB+ of memory on at least one machine when...DnaSP v5: a software for comprehensive analysis of DNA polymorphism data
By Jit 2877 days agohttp://www.ub.edu/dnasp/ - DnaSP is a software package for a comprehensive analysis of DNA polymorphism data. Version 5 implements a number of new features and analytical methods allowing extensive DNA polymorphism analyses on large datasets. Among other features, the newly...bedtools
By Jit 2859 days agobedtools.readthedocs.io - Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. For...splitbam: splits a BAM by chromosomes
By Jit 2855 days agocode.google.com - splitbam splits a BAM by chromosomes. Using the reference sequence dictionary (*.dict), it also creates some empty BAM files if no sam record was found for a chromosome. A pair of 'mock' SAM-Records can also be added to those empty BAMs to...Prokka: tool for the rapid annotation of prokaryotic genomes
By Jit 2849 days agowww.vicbioinformatics.com - Prokka is a software tool for the rapid annotation of prokaryotic genomes. A typical 4 Mbp genome can be fully annotated in less than 10 minutes on a quad-core computer, and scales well to 32 core SMP systems. It produces GFF3, GBK and SQN files...COCACOLA (binning metagenomic contigs using sequence COmposition, read CoverAge, CO-alignment, and...
By Jit 2848 days agogithub.com - COCACOLA is a general framework that combines different types of information: sequence COmposition, CoverAge across multiple samples, CO-alignment to reference genomes and paired-end reads LinkAge to automatically bin contigs into OTUs. Furthermore,...Multigenome assembly
By Jit 2841 days agogithub.com - This project contains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes Mads...Enrichr: a comprehensive gene set enrichment analysis
By Jit 2797 days agoamp.pharm.mssm.edu - Enrichment analysis is a popular method for analyzing gene sets generated by genome-wide experiments. Here we present a significant update to one of the tools in this domain called Enrichr. Enrichr currently contains a large collection of diverse...Download assemblies from NCBI
By Bulbul 2779 days ago Comments (1)A new “Download assemblies” button is now available in the Assembly database. This makes it easy to download data for multiple genomes without having to write scripts.
