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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TEannot
By Jit 3049 days agourgi.versailles.inra.fr - We advise to run first the TEdenovo pipeline but it is not compulsory. We suppose you begin by running the TEannot pipeline on the example provided in the directory "db/" rather than directly on your own genomic sequences. Thus, from now on, the...LUMPY
By Shruti Paniwala 3042 days agogithub.com - A probabilistic framework for structural variant discovery. Ryan M Layer, Colby Chiang, Aaron R Quinlan, and Ira M Hall. 2014. "LUMPY: a Probabilistic Framework for Structural Variant Discovery." Genome Biology 15 (6):...Ka, Ks and Ka/Ks calculations
By Poonam Mahapatra 3038 days agolonglab.uchicago.edu - gKaKs is a codon-based genome-level Ka/Ks computation pipeline developed and based on programs from four widely used packages: BLAT, BLASTALL (including bl2seq, formatdb and fastacmd), PAML (including codeml and yn00) and KaKs_Calculator (including...Redundans
By Jit 3035 days agogithub.com - Redundans pipeline assists an assembly of heterozygous genomes.Program takes as input assembled contigs, paired-end and/or mate pairs sequencing libraries and returns scaffolded homozygous genome assembly, that should...
Assembly tutorial PPT
By Jit 3029 days ago Comments (1)Saved Cornell University assembly workshop PPT. Reference: http://cbsu.tc.cornell.edu/lab/doc/assembly_workshop_20150420_lecture1.pdfOPERA : Optimal Paired-End Read Assembler
By Jit 3027 days agosourceforge.net - OPERA (Optimal Paired-End Read Assembler) is a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_assembly). It uses information from paired-end/mate-pair/long reads to order and orient the intermediate contigs/scaffolds assembled in a...Ribbon !!
By Jit 2985 days agohttp://genomeribbon.com/ - Visualization has played an extremely important role in the current genomic revolution to inspect and understand variants, expression patterns, evolutionary changes, and a number of other relationships. However, most of the information in...eFORGE.v1.2
By Jit 2978 days agoeforge.cs.ucl.ac.uk - The eFORGE tool provides a method to view the tissue specific regulatory component of a set of EWAS DMPs. eFORGE analysis takes a set of DMPs, such as those hits above genome-wide significance threshold in an EWAS study, and analyses whether there...R Graphical Cookbook by Winston Chang
By Abhimanyu Singh 2970 days agoR Graphical Cookbook by Winston Chang A very nice book by Winston Chang for R ethusiast. The R code presented in these pages is the R code actually used to produce the Figures in the book. There will be differences compared to the code chunks shown...Method in Comparative genomics !!
By Jit 2965 days ago Comments (2)web.mit.edu - We present methods for the automatic determination of genome correspondence. The algorithms enabled the automatic identification of orthologs for more than 90% of genes and intergenic regions across the four species despite the large number of...
