Puriney

Puriney

# load libs
library(monocle)
library(HSMMSingleCell)
library(rsvd)
library(ggplot2)
library(ggpubr)

# load data
data("HSMM_expr_matrix")
data("HSMM_sample_sheet")

Puriney

Puriney

Puriney

Puriney

Puriney

set.seed(1234)
g <- sample_gnp(n=10, 0.15) #make_ring(10)
V(g)$name <- letters[1:10]
plot(g)
rm_e <- combinations(n=3, r=2, v=c('b', 'i', 'c'))
rm_e_do <- apply(rm_e, 1, function(r) are.connected(g, r[1], r[2]))
rm_e <- rm_e[rm_e_do, ] %>% apply(., 1, paste, collapse='|')
par(mfrow=c(1, 2))
plot(g)
plot(g - edge(rm_e))

Puriney

#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""

@contact: Yun Yan ([email protected])
"""

from ruffus import *
from helper import *

Puriney

Folder structure:

__init__.py is a blank file.

├── RandInit_HMM_Py
│   ├── __init__.py
│   ├── demoRunPkg.py
│   ├── demoRunIn.py
|.. ├── helper.py

Puriney

#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
- multiprossing 101
- whether multiprocessing could contain subprocess work
@contact: Yun Yan ([email protected])
"""
import subprocess
from multiprocessing import Pool
import os