multiplex-wormhole 1.0.1__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- multiplex_wormhole/__init__.py +41 -0
- multiplex_wormhole/batch_primer3_design.py +655 -0
- multiplex_wormhole/helpers/CSVtoFasta.py +88 -0
- multiplex_wormhole/helpers/add_keeplist_to_fasta.py +113 -0
- multiplex_wormhole/helpers/logging_setup.py +40 -0
- multiplex_wormhole/helpers/setup_mfeprimer.py +103 -0
- multiplex_wormhole/multiple_run_optimization.py +233 -0
- multiplex_wormhole/multiplexWormhole.py +333 -0
- multiplex_wormhole/offtarget_thermodynamics.py +140 -0
- multiplex_wormhole/optimize_multiplex.py +1131 -0
- multiplex_wormhole/panel_assessment.py +197 -0
- multiplex_wormhole/plot_ASA_temps.py +558 -0
- multiplex_wormhole/tabulate_dimers.py +309 -0
- multiplex_wormhole-1.0.1.dist-info/METADATA +89 -0
- multiplex_wormhole-1.0.1.dist-info/RECORD +19 -0
- multiplex_wormhole-1.0.1.dist-info/WHEEL +5 -0
- multiplex_wormhole-1.0.1.dist-info/entry_points.txt +12 -0
- multiplex_wormhole-1.0.1.dist-info/licenses/LICENSE +674 -0
- multiplex_wormhole-1.0.1.dist-info/top_level.txt +1 -0
|
@@ -0,0 +1,41 @@
|
|
|
1
|
+
# LOAD ALL SUBMODULES
|
|
2
|
+
import sys, os, importlib, glob
|
|
3
|
+
sys.path.append(os.path.dirname(__file__))
|
|
4
|
+
|
|
5
|
+
import multiplexWormhole
|
|
6
|
+
import panel_assessment
|
|
7
|
+
import batch_primer3_design
|
|
8
|
+
import tabulate_dimers
|
|
9
|
+
import optimize_multiplex
|
|
10
|
+
import multiple_run_optimization
|
|
11
|
+
import offtarget_thermodynamics
|
|
12
|
+
from helpers import _setup_mfeprimer
|
|
13
|
+
from helpers import CSVtoFasta
|
|
14
|
+
from helpers import add_keeplist_to_fasta
|
|
15
|
+
plot_ASA_temps = importlib.import_module("plot_ASA_temps")
|
|
16
|
+
|
|
17
|
+
|
|
18
|
+
|
|
19
|
+
# SET NAMES FOR MAIN FUNCTIONS
|
|
20
|
+
assessPanel = panel_assessment.main
|
|
21
|
+
primer3BatchDesign = batch_primer3_design.main
|
|
22
|
+
tabulateDimers = tabulate_dimers.main
|
|
23
|
+
plotASAtemps = plot_ASA_temps.main
|
|
24
|
+
optimizeMultiplex = optimize_multiplex.main
|
|
25
|
+
multipleOptimizations = multiple_run_optimization.main
|
|
26
|
+
CSVtoFASTA = CSVtoFasta.main
|
|
27
|
+
addKeeplist2FASTA = add_keeplist_to_fasta.main
|
|
28
|
+
multiplexWormhole = multiplexWormhole.main
|
|
29
|
+
offtargetThermodynamics = offtarget_thermodynamics.main
|
|
30
|
+
setup_mfeprimer = _setup_mfeprimer.main
|
|
31
|
+
|
|
32
|
+
|
|
33
|
+
# SET DEPENDENCY PATH FOR MFEPRIMER
|
|
34
|
+
_hits = glob.glob(os.path.dirname(__file__)+"/*mfeprimer*")
|
|
35
|
+
MFEprimer_PATH = _hits[0] if _hits else None
|
|
36
|
+
|
|
37
|
+
|
|
38
|
+
|
|
39
|
+
__all__ = ["multiplexWormhole", "panel_assessment", "setup_mfeprimer", "batch_primer3_design",
|
|
40
|
+
"tabulate_dimers", "optimize_multiplex", "multiple_run_optimization", "CSVtoFasta",
|
|
41
|
+
"add_keeplist_to_fasta", "plot_ASA_temps", "offtarget_thermodynamics"]
|