Comments (2)
R
function poisthin
is currently used to generate simulated data.
Location: dsc/modules/dataSimulate.R
Source: Taken from Davis' seqgendiff
package
Modifications:
- I added
signal_dist
argument to specify the desired distribution for the signals, such as "big_normal" and "near_normal" (more can be added later) - I specified the distribution parameters inside the
pois_thin
function
Comments:
- We can include this in a separate R package as the function grows
from dsc-log-fold-change.
Another resource is David's seqgendiff package:
This package is designed to take real RNA-seq data and alter it by adding signal to a known proportion of the genes. The advantage of this way of simulating data is that you can see how your method behaves when the simulated data exhibit common (and annoying) features of real data.
from dsc-log-fold-change.
Related Issues (9)
- Declare module specific R libraries HOT 5
- Methods to be added HOT 2
- Manage R package dependencies (conda) HOT 5
- Document pipeline variables and module input/output at the top of `benchmark.dsc` HOT 5
- Simplify logic of the pipelines HOT 14
- Simulate module: allow sample sizes to vary HOT 1
- syntax for logical pipeline variable HOT 3
- qvalue function error
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from dsc-log-fold-change.