estimation of the unfolded site frequency spectrum
Input
name:type
description
pattern
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:'test']
e_config{:bash}
:file
config file for est-sfs
*.txt
data{:bash}
:file
input data file for est-sfs
*.txt
seed{:bash}
:file
text file containing random number seed
*.txt
Output
name:type
description
pattern
sfs_out{:bash}
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:'test']
${prefix}_sfs.txt{:bash}
:file
output file consists of the comma-separated estimated uSFS vector
*.txt
pvalues_out{:bash}
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:'test']
${prefix}_pvalues.txt{:bash}
:file
this file contains the estimated ancestral state probabilities for each site
*.txt
versions{:bash}
versions.yml{:bash}
:file
File containing software versions
versions.yml
Tools
estsfs
Free for Academic Use
est-sfs ( Keightley and Jackson, 2018) is a stand-alone implementation of a method to infer the unfolded site frequency spectrum (the uSFS) and ancestral state probabilities by maximum likelihood (ML).
