#INPUT_BAM=/Users/nemesh/dropseqrna/transcriptome_java/public/testdata/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG_retagged.bam	INPUT_VCF=/Users/nemesh/dropseqrna/transcriptome_java/public/testdata/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG.vcf	DONOR_FILE=testdata/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/donors.txt	CELL_BC_FILE=testdata/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG_retagged.cellBarcodes.txt	GQ_THRESHOLD=30	FRACTION_SAMPLES_PASSING=0.5	FORCED_RATIO=0.8	USE_MISSING_DATA=false	READ_MQ=10	FIXED_ERROR_RATE=0.1	MAX_ERROR_RATE=NA	LOCUS_FUNCTION=[CODING, UTR]	PAIRS_TO_TEST=5	CELL_CONTAMINATION_ESTIMATE_FILE=/Users/nemesh/dropseqrna/transcriptome_java/public/testdata/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TEST_TTTGCGCGGAGC:ATTGTTTAGGAG.contamination.txt	ALLELE_FREQUENCY_ESTIMATE_FILE=/Users/nemesh/dropseqrna/transcriptome_java/public/testdata/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TEST_TTTGCGCGGAGC:ATTGTTTAGGAG.minor_allele_freq.txt
cell	sampleOneMixtureRatio	sampleOne	sampleOneLikelihood	sampleTwo	sampleTwoLikelihood	mixedSample	mixedSampleLikelihood	num_paired_snps	num_inform_snps	num_umi	num_inform_umis	lr_test_stat	sampleOneWrongAlleleCount	num_homozygous_inform_umis_s1	sampleTwoWrongAlleleCount	num_homozygous_inform_umis_s2	bestLikelihood	bestSample	doublet_pval	bestLikelihoodScaled
TTTGCGCGGAGC:ATTGTTTAGGAG	0.703	HUES53	-9.040565746626616	NKX	-10.686206267920456	HUES53:NKX	-8.600835880105146	28	18	32	22	0.4397298665214695	5	16	6	11	-8.600835880105146	HUES53:NKX	0.7291183891942016	-8.600835880105146
TTTGCGCGGAGC:ATTGTTTAGGAG	0.742	HUES53	-9.040565746626616	HUES62	-10.143927365119099	HUES53:HUES62	-8.74226140020315	28	15	32	17	0.2983043464234658	5	13	6	7	-8.74226140020315	HUES53:HUES62	0.6481695572664059	-8.74226140020315
TTTGCGCGGAGC:ATTGTTTAGGAG	0.658	HUES53	-9.040565746626616	HUES63	-9.743850224331059	HUES53:HUES63	-8.68255764524576	28	12	32	15	0.3580081013808556	5	8	8	11	-8.68255764524576	HUES53:HUES63	0.655582927485485	-8.68255764524576
TTTGCGCGGAGC:ATTGTTTAGGAG	0.729	HUES53	-9.040565746626616	HUES64	-9.832958674781393	HUES53:HUES64	-8.803649841221707	28	11	32	14	0.23691590540490814	5	9	7	8	-8.803649841221707	HUES53:HUES64	0.5977232799698253	-8.803649841221707
