saint-spc-ctrl1
Run saint with control data
Usage
saint-spc-ctrl [interactionFile]
[preyFile]
[baitFile]
[nburnin]
[niter]
[lowMode]
[minFold]
[normalize]
Overview
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nburnin = 2000: number of burn-in iterations in MCMC. |
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niter = 10000: number of main iterations in MCMC. |
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lowMode = 0/1 : exclude extremely high counts in the model. |
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- If baits are densely connected or dataset is small (few baits), use 1. |
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- otherwise, use 0. |
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minFold = 0/1 : forcing separation between true and false distributions. |
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- If user wishes to allow typical contaminants with significant |
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differential enrichment over control purifications, use 0. |
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|
- otherwise, use 1. |
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normalize = 0/1 : divide the counts by the total spectral counts in each IP. |
|
|
nburnin = 2000: number of burn-in iterations in MCMC. |
|
|
niter = 10000: number of main iterations in MCMC. |
|
|
lowMode = 0/1 : exclude extremely high counts in the model. |
|
|
- If baits are densely connected or dataset is small (few baits), use 1. |
|
|
- otherwise, use 0. |
|
|
minFold = 0/1 : forcing separation between true and false distributions. |
|
|
- If user wishes to allow typical contaminants with significant |
|
|
differential enrichment over control purifications, use 0. |
|
|
- otherwise, use 1. |
|
|
normalize = 0/1 : divide the counts by the total spectral counts in each IP. |
Releases
Unchanged in 7 releases since Debian 7 (Wheezy).