Suites of Bioinformatic Tools for Basic Scientists
SWAN Pathway Analysis
Publication of SWAN is available on Pubmed, Nucleic Acids Research, and as a pre-print.
Overviews of concepts and math are available on YouTube. A printable manual is linked below.
Data usage disclaimer for SWAN: data entered into this system should be limited to public data
Overviews of concepts and math are available on YouTube. A printable manual is linked below.
Data usage disclaimer for SWAN: data entered into this system should be limited to public data
| swan_manual.pdf |
Start Here: SWAN Data Groomer
Transform data output from vendors and core facilities into a format amenable to pathway analysis
SWAN Single Pathway Analysis
Deep-dive into interesting pathways with striking visual outputs from SWAN analysis
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SWAN Pan-Pathway Analysis
Central pathway analysis software: Shifted Weighted Annotation Network analysis. Performs automated analysis over a large number of pathways
SWAN TCGA CNAlysis Atlas
Pan-pathway SWAN analysis results for TCGA cancer datasets, plus summary data for each cancer type
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Simple Statistics Apps
Easy to use Apps to generate standard scientific statistics
Power Calculator
Simple calculator to determine sample size or power, using t-test distribution. Simulates data for verification. |
PCA Calculator
and Plotter 
Groups data in an unbiased manner based on principal components, a measure of data variation.
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Two-Sample Statistics Calculator
Compare two sets of data using t-test or Wilcoxon rank-sum (aka Mann-Whitney U test). Graph the data along with p-value. |
Other Published Apps
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CAIRN
Navigate CNAs along specific loci or gene(s), using custom or TCGA data.
See publication for more information. |
FairSubset
Determines which consistent N subset of data retain the average and standard deviation of original data. Helps with single-datum plots and replicate normalization. See publication for more information. |
