Description

estimation of the unfolded site frequency spectrum

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:'test']

e_config:file

config file for est-sfs

*.txt

data:file

input data file for est-sfs

*.txt

seed:file

text file containing random number seed

*.txt

Output

name:type
description
pattern

sfs_out

meta:map

Groovy Map containing sample information e.g. [ id:'test']

${prefix}_sfs.txt:file

output file consists of the comma-separated estimated uSFS vector

*.txt

pvalues_out

meta:map

Groovy Map containing sample information e.g. [ id:'test']

${prefix}_pvalues.txt:file

this file contains the estimated ancestral state probabilities for each site

*.txt

ues_out:file

this file contains the estimated ancestral state probabilities for each site

*.txt

versions

versions.yml: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).