ATCC_Essential_1000

input files:
TP10_S10_R1_001_trimmed
TP11_S11_R1_001_trimmed
TP12_S12_R1_001_trimmed

gff: ATCC

number of replicates: 3

to trim: 50
number of expected datasets: 100
number of sites: 202179
number of sites shared by at least 2 samples: 135428
number of sites in all three samples: 105677

numreads: 14936373.6666667
numsites: 147761.333333333

Analyses with betaPrior = FALSE (no l2fc shrinkage):

number of genes with pvalue <= 0.01 in FALSE: 1252
number of genes with padj <= 0.01 in FALSE: 1201

Mclust Unchanged FALSE: 1317
Mclust Reduced FALSE: 693

Mclust_reduced_mean_False: -7.04308698972226
Mclust_unchanged_mean_False: 0.570771667215383

Mclust_reduced_variance_False: 11.6804402298769
Mclust_unchanged_variance_False: 0.815640878095332

 Reduced and Uncertainty <=0.01 if FALSE: 602
Reduced and Uncertainty <=0.01 and padj <=0.01 if FALSE: 602

 Reduced and Uncertainty <=0.05 if FALSE: 628
Reduced and Uncertainty <=0.05 and padj <=0.05 if FALSE: 628

Analyses with betaPrior = TRUE (l2fc shrinkage):

number of genes with pvalue <= 0.01 in TRUE: 1252
number of genes with padj <= 0.01 in TRUE: 1201

Mclust Unchanged TRUE: 1326
Mclust Reduced TRUE: 684

Mclust_reduced_mean_TRUE: -0.502797805262905
Mclust_unchanged_mean_TRUE: 7.06791893155807

Mclust_reduced_variance_TRUE: 0.700147259953212
Mclust_unchanged_variance_TRUE: 10.9630006270274

 Reduced and Uncertainty <=0.01 if TRUE: 606
Reduced and Uncertainty <=0.01 and padj <=0.01 if TRUE: 606

 Reduced and Uncertainty <=0.05 if TRUE: 625
Reduced and Uncertainty <=0.05 and padj <=0.05 if TRUE: 625
