From 96ba57d65358e6c38412be0414e2fb65387c19cf Mon Sep 17 00:00:00 2001 From: efischer Date: Fri, 4 Mar 2022 16:14:17 -0600 Subject: [PATCH] Remove singleton sequences from wells in initial filtering --- src/main/java/Simulator.java | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/src/main/java/Simulator.java b/src/main/java/Simulator.java index e0e186c..8bf462b 100644 --- a/src/main/java/Simulator.java +++ b/src/main/java/Simulator.java @@ -46,9 +46,9 @@ public class Simulator implements GraphModificationFunctions { if(verbose){System.out.println("All betas count: " + betaCount);} if(verbose){System.out.println("Well maps made");} - if(verbose){System.out.println("Removing sequences present in all wells.");} - filterByOccupancyThresholds(allAlphas, 1, numWells - 1); - filterByOccupancyThresholds(allBetas, 1, numWells - 1); + if(verbose){System.out.println("Removing singleton sequences and sequences present in all wells.");} + filterByOccupancyThresholds(allAlphas, 2, numWells - 1); + filterByOccupancyThresholds(allBetas, 2, numWells - 1); if(verbose){System.out.println("Sequences removed");} int pairableAlphaCount = allAlphas.size(); if(verbose){System.out.println("Remaining alphas count: " + pairableAlphaCount);}