eugenefischer 19a2a35f07 Refactor plate assay methods to use maps passed as parameters rather than returning maps

2022-09-26 17:00:25 -05:00

..

META-INF

Add .jar manifest to repo

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

BiGpairSEQ.java

revert options menu

2022-09-26 14:24:58 -05:00

CellFileReader.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

CellFileWriter.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

CellSample.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

CommandLineInterface.java

notes toward command line read depth option

2022-09-26 14:25:30 -05:00

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

Comment: need to update this when read count is implemented

2022-09-26 13:46:53 -05:00

GraphModificationFunctions.java

add comments

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

GraphWithMapData.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

HeapType.java

make heap type an enum

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

InteractiveInterface.java

Add code to simulate read depth

2022-09-26 16:52:56 -05:00

MatchingFileWriter.java

Implemented storing graphs in memory for multiple pairing experiments

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

MatchingResult.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

Plate.java

Refactor plate assay methods to use maps passed as parameters rather than returning maps

2022-09-26 17:00:25 -05:00

PlateFileReader.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

PlateFileWriter.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00

SequenceType.java

Hand-merge of some things from Dev_Vertex branch that didn't make it in for some reason

2022-09-25 19:07:25 -05:00

Simulator.java

Refactor plate assay methods to use maps passed as parameters rather than returning maps

2022-09-26 17:00:25 -05:00

Vertex.java

Refactor sequences to be strings instead of integers, to make simulating read errors easier

2022-09-26 13:37:48 -05:00