:: DESCRIPTION
TwinCons is a software to detect noisy signals of deep ancestry of proteins or nucleic acids.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Penev PI, Alvarez-Carreño C, Smith E, Petrov AS, Williams LD.
TwinCons: Conservation score for uncovering deep sequence similarity and divergence.
PLoS Comput Biol. 2021 Oct 29;17(10):e1009541. doi: 10.1371/journal.pcbi.1009541. PMID: 34714829; PMCID: PMC8580257.
:: DESCRIPTION
nuScore allows estimation of the affinity of the histone core to DNA and prediction of nucleosome arrangement on a given sequence. The algorithm is based on assessment of the energy cost of imposing the deformations required to wrap DNA around the histone surface
::DEVELOPER
Peter Park’s lab at CBMI, Harvard Medical School
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Tolstorukov MY, Choudhary V, Olson WK, Zhurkin VB, Park PJ.
nuScore: a web-interface for nucleosome positioning predictions.
Bioinformatics. 2008. 24:1456-1458.
:: DESCRIPTION
RHScorer is used to score gels. The software consists of client applet and a server.The server is used to maintain the Gel Images and scores. The applet is used to score the gels.
::DEVELOPER
Coordinated Laboratory for Computational Genomics (CLCG)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
GA2GAQ allows user to quantitatively assess GO annotation of a set of gene products. The GAQ score includes breadth of GO annotation, level of detail for annotation and type of evidence used to make the annotation. The output is a summary of total GAQ scores for each gene product, the number of gene products annotated and the average (mean) GAQ score of the whole set.
:: DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2008 Feb;36(2):e12. doi: 10.1093/nar/gkm1167.
Gene Ontology annotation quality analysis in model eukaryotes.
Buza TJ, McCarthy FM, Wang N, Bridges SM, Burgess SC.
:: DESCRIPTION
iHS_calc is designed to calculate the integrated Hapotype Score (iHS).
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
PLoS Biol. 2006 Mar;4(3):e72. Epub 2006 Mar 7.
A map of recent positive selection in the human genome.
Voight BF1, Kudaravalli S, Wen X, Pritchard JK.
:: DESCRIPTION
MOST (Multivariate Outcome Score Test) is able to analyze all the traits jointly. The framework is flexible in that it can handle both continuous and binary traits, or a mixture of them. In addition, it can accommodate family data, can adjust for covariates (such as ancestry variables, age, gender, etc.), and can be combined efficiently across studies with different designs. Furthermore, it has a built-in Monte Carlo procedure that can determine the genome-wide significance by taking into account the LD information among all the SNPs. Tur framework establishes a flexible platform for the analysis of multivariate-outcome association study, and provides a powerful tool for uncovering pleiotropic genetic variants.
::DEVELOPER
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Genet Epidemiol. 2013 Dec;37(8):759-67. doi: 10.1002/gepi.21759. Epub 2013 Nov 5.
A general framework for association tests with multivariate traits in large-scale genomics studies.
He Q1, Avery CL, Lin DY.
:: DESCRIPTION
CINDEL is a regression-based model for CRISPR AsCpf1 Indel score, trained with hundreds of in-vitro datasets that Prof. Hyungbum Kim’s lab generated.
:: DEVELOPER
BIG Lab. (BIOINFORMATICS & GENOMICS)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation:
Kim HK, Song M, Lee J, Menon AV, Jung S, Kang YM, Choi JW, Woo E, Koh HC, Nam JW, Kim H.
In vivo high-throughput profiling of CRISPR-Cpf1 activity.
Nat Methods. 2017 Feb;14(2):153-159. doi: 10.1038/nmeth.4104. Epub 2016 Dec 19. PMID: 27992409.
:: DESCRIPTION
PRSice is a software package for calculating, applying, evaluating and plotting the results of polygenic risk scores.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PRSice: Polygenic Risk Score software.
Euesden J, Lewis CM, O’Reilly PF.
Bioinformatics. 2014 Dec 29. pii: btu848.
:: DESCRIPTION
RVIS is a gene-based score intended to help in the interpretation of human sequence data.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
PLoS Genet. 2013;9(8):e1003709. doi: 10.1371/journal.pgen.1003709. Epub 2013 Aug 22.
Genic intolerance to functional variation and the interpretation of personal genomes.
Petrovski S1, Wang Q, Heinzen EL, Allen AS, Goldstein DB.
:: DESCRIPTION
iMEGES is a software tool that prioritize the whole genome variants and genes related to mental disease.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Khan A, Liu Q, Wang K.
iMEGES: integrated mental-disorder GEnome score by deep neural network for prioritizing the susceptibility genes for mental disorders in personal genomes.
BMC Bioinformatics. 2018 Dec 28;19(Suppl 17):501. doi: 10.1186/s12859-018-2469-7. PMID: 30591030; PMCID: PMC6309067.