Repository revision
3:8b1020c25f0f

Repository 'cpm_tpm_rpk'
hg clone https://toolshed.g2.bx.psu.edu/repos/artbio/cpm_tpm_rpk

Generate CPM, TPM, RPK tool metadata
Miscellaneous
from raw counts expression values
cpm_tpm_rpk
toolshed.g2.bx.psu.edu/repos/artbio/cpm_tpm_rpk/cpm_tpm_rpk/0.4.0
0.4.0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/artbio/cpm_tpm_rpk/cpm_tpm_rpk/0.4.0 (this tool)
toolshed.g2.bx.psu.edu/repos/artbio/cpm_tpm_rpk/cpm_tpm_rpk/0.3.0
toolshed.g2.bx.psu.edu/repos/artbio/cpm_tpm_rpk/cpm_tpm_rpk/0.2.0
toolshed.g2.bx.psu.edu/repos/artbio/cpm_tpm_rpk/cpm_tpm_rpk/0.1.0
cpm_tpm_rpk
Requirements (dependencies defined in the <requirements> tag set)
name version type
r-optparse 1.3.2=r3.3.2_0 package
r-rtsne 0.13=r3.3.2_0 package
r-ggplot2 2.2.1=r3.3.2_0 package
r-ggfortify 0.4.1=r3.3.2_0 package
Functional tests
name inputs outputs required files
Test-1 visu_option|perp: 10
visu_option|seed: 49
visu_option|tsne_labels: yes
log: FALSE
visu_option|visualisation: yes
option|type_transfo: none
input: none.tab
visu_option|theta: 1
attributes: name
attributes: name
attributes: name
none.tab
name
Test-2 visu_option|perp: 2
visu_option|seed: 49
visu_option|tsne_labels: yes
log: TRUE
visu_option|visualisation: yes
option|type_transfo: cpm
input: counts.tab
visu_option|theta: 1
attributes: name
attributes: name
attributes: name
counts.tab
name
Test-3 visu_option|perp: 2
visu_option|seed: 49
visu_option|tsne_labels: no
log: TRUE
visu_option|visualisation: yes
option|type_transfo: tpm
input: counts.tab
option|gene_file: gene_length.tab
visu_option|theta: 1
attributes: name
attributes: name
attributes: name
counts.tab
gene_length.tab
name
Test-4 option|type_transfo: cpm
input: counts.tab
attributes: name
counts.tab
name
Test-5 option|type_transfo: cpm
input: counts.tab
log: TRUE
attributes: name
counts.tab
name
Test-6 option|gene_header: TRUE
input: counts.tab
option|type_transfo: tpm
option|gene_file: gene_length.tab
attributes: name
counts.tab
gene_length.tab
name
Test-7 option|gene_header: TRUE
input: counts.tab
option|type_transfo: tpm
option|gene_file: gene_length.tab
log: TRUE
attributes: name
counts.tab
gene_length.tab
name
Test-8 option|gene_header: TRUE
input: counts.tab
option|type_transfo: rpk
option|gene_file: gene_length.tab
attributes: name
counts.tab
gene_length.tab
name
Test-9 option|gene_header: TRUE
input: counts.tab
option|type_transfo: rpk
option|gene_file: gene_length.tab
log: TRUE
attributes: name
counts.tab
gene_length.tab
name