eugenefischer 8a77d53f1f Output sequence counts before and after pre-filtering (currently pre-filtering only sequences present in all wells)

2022-09-25 17:20:50 -05:00

..

META-INF

Add .jar manifest to repo

2022-02-22 21:45:46 -06:00

BiGpairSEQ.java

Merge branch 'master' into Dev_Vertex

2022-09-25 14:18:56 -05:00

CellFileReader.java

Cache everything

2022-02-23 10:30:42 -06:00

CellFileWriter.java

Implemented parameter for CDR1 frequency

2021-11-18 11:55:54 -06:00

CellSample.java

Changing graph to use Vertex class

2022-02-26 06:19:08 -06:00

CommandLineInterface.java

Add optional stdout print flags

2022-03-01 15:27:04 -06:00

Equations.java

make everything use same random number generator

2022-02-23 09:29:21 -06:00

GraphDataObjectReader.java

Add detail to error message

2022-03-01 15:24:14 -06:00

GraphDataObjectWriter.java

Control verbose output

2022-02-27 16:03:57 -06:00

GraphMLFileWriter.java

by-hand merge of needed code from custom vertex branch

2022-09-21 16:48:26 -05:00

GraphModificationFunctions.java

add comments

2022-09-25 16:10:17 -05:00

GraphWithMapData.java

Output sequence counts before and after pre-filtering (currently pre-filtering only sequences present in all wells)

2022-09-25 17:20:50 -05:00

HeapType.java

make heap type an enum

2022-02-26 08:15:31 -06:00

InteractiveInterface.java

Reword option menu item

2022-09-21 21:43:47 -05:00

MatchingFileWriter.java

Implemented storing graphs in memory for multiple pairing experiments

2022-02-22 21:30:00 -06:00

MatchingResult.java

Add getters to MatchingResult

2022-02-27 16:15:26 -06:00

Plate.java

Merge branch 'master' into Dev_Vertex

2022-09-25 14:18:56 -05:00

PlateFileReader.java

Refactor plate to fill its own wells in its constructor

2022-02-27 14:25:53 -06:00

PlateFileWriter.java

create populations string correctly

2022-02-23 08:11:01 -06:00

SequenceType.java

by-hand merge of needed code from custom vertex branch

2022-09-21 16:48:26 -05:00

Simulator.java

Output sequence counts before and after pre-filtering (currently pre-filtering only sequences present in all wells)

2022-09-25 17:20:50 -05:00

Vertex.java

Sort vertex lists by vertex label before making adjacency matrix

2022-09-25 15:54:28 -05:00