- Aug 2022
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Polis. (n.d.). Retrieved April 26, 2022, from https://pol.is/home
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- Mar 2021
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arxiv.org arxiv.org
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Gupta, Prateek, Tegan Maharaj, Martin Weiss, Nasim Rahaman, Hannah Alsdurf, Abhinav Sharma, Nanor Minoyan, et al. ‘COVI-AgentSim: An Agent-Based Model for Evaluating Methods of Digital Contact Tracing’. ArXiv:2010.16004 [Cs], 29 October 2020. http://arxiv.org/abs/2010.16004.
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- Sep 2020
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psycnet.apa.org psycnet.apa.org
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Moreau, D., & Gamble, B. (2020). Conducting a meta-analysis in the age of open science: Tools, tips, and practical recommendations. Psychological Methods, No Pagination Specified-No Pagination Specified. https://doi.org/10.1037/met0000351
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github.com github.com
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aaronpeikert. (2020). Aaronpeikert/reproducible-research [TeX]. https://github.com/aaronpeikert/reproducible-research (Original work published 2019)
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- Aug 2020
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psyarxiv.com psyarxiv.com
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Moreau, D., & Gamble, B. (2020). Conducting a Meta-Analysis in the Age of Open Science: Tools, Tips, and Practical Recommendations [Preprint]. PsyArXiv. https://doi.org/10.31234/osf.io/t5dwg
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- Jul 2020
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Bae, J.-M. (2014). The clinical decision analysis using decision tree. Epidemiology and Health, 36. https://doi.org/10.4178/epih/e2014025
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- May 2020
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nexus.od.nih.gov nexus.od.nih.gov
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Santangelo, G. (2020, April 15). New NIH Resource to Analyze COVID-19 Literature: The COVID-19 Portfolio Tool. NIH Extramural Nexus. https://nexus.od.nih.gov/all/2020/04/15/new-nih-resource-to-analyze-covid-19-literature-the-covid-19-portfolio-tool/
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- Sep 2018
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clark.cs.ucr.edu clark.cs.ucr.edu
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CLARK is a software tool for classifying any type of DNA/RNA sequences
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- Jun 2018
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www.youtube.com www.youtube.com
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Analyzing and Modeling Time Series Gene Expression with STEM and DREM
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URL
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- Dec 2017
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www.sciencedirect.com www.sciencedirect.com
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Transcription factor–DNA binding: beyond binding site motifs
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- Nov 2017
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rafalab.github.io rafalab.github.ioharvardx1
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HarvardX Biomedical Data Science Open Online Training
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epigeneticsandchromatin.biomedcentral.com epigeneticsandchromatin.biomedcentral.com
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Genome-wide methylation data mirror ancestry information
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genomebiology.biomedcentral.com genomebiology.biomedcentral.com
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novel method developed within the MAQC-III project utilizing the expression distributions, corrected for noise and batch effects, and assisted by random resampling, to compute DEG scores related to the Wilcoxon U test (Magic, see Additional file 1: Supplementary Note 2)
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academic.oup.com academic.oup.com
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MOSAiCS implements a model-based approach where the background distribution for unbound regions take into account systematic biases such as mappability and GC content and the peak regions are described with a two component Negative Binomial mixture model
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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EXCAVATOR: detecting copy number variants from whole-exome sequencing data
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Robust enumeration of cell subsets from tissue expression profiles
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bmcbioinformatics.biomedcentral.com bmcbioinformatics.biomedcentral.com
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AutoSOME: a clustering method for identifying gene expression modules without prior knowledge of cluster number
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www.nature.com www.nature.com
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CIBERSORT, a computational approach for inferring leukocyte representation in bulk tumor transcriptomes
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gmt.genome.wustl.edu gmt.genome.wustl.edu
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SomaticSniper
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- Oct 2017
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Salmon provides fast and bias-aware quantification of transcript expression
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support.illumina.com support.illumina.com
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KaryoStudio
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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argyle: An R Package for Analysis of Illumina Genotyping Arrays
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- Jul 2017
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academic.oup.com academic.oup.com
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RCP: a novel probe design bias correction method for Illumina Methylation BeadChip
better than BMIQ
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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The ISMARA client
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genome.cshlp.org genome.cshlp.org
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ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs
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- Apr 2017
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www.biostars.org www.biostars.org
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I'm the developer of pyGeno. Here's a little script that does just that for the Gene TPST2, by using segment trees
recipe for merging transcripts of a gene into a single compound transcript
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- Jun 2016
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voyant-tools.org voyant-tools.org
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Voyant Tools is a web-based reading and analysis environment for digital texts.
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