#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	0.654	HUES53	-8.616641667765629	NKX	-9.872214589636938	HUES53:NKX	-8.069650439292062	26	17	29	20	0.5469912284735674	5	14	6	11	-8.069650439292062	HUES53:NKX	0.7694951988774276	-8.069650439292062
TTTGCGCGGAGC:ATTGTTTAGGAG	0.681	HUES53	-8.616641667765629	HUES62	-9.258245194585342	HUES53:HUES62	-8.2277209519356	26	14	29	16	0.38892071583002874	5	13	5	6	-8.2277209519356	HUES53:HUES62	0.6659533068040794	-8.2277209519356
TTTGCGCGGAGC:ATTGTTTAGGAG	0.658	HUES53	-8.616641667765629	HUES63	-9.31992614547007	HUES53:HUES63	-8.258633566384772	26	12	29	15	0.35800810138085737	5	8	8	11	-8.258633566384772	HUES53:HUES63	0.6555829274854857	-8.258633566384772
TTTGCGCGGAGC:ATTGTTTAGGAG	0.729	HUES53	-8.616641667765629	HUES64	-9.409034595920408	HUES53:HUES64	-8.37972576236072	26	11	29	14	0.23691590540490814	5	9	7	8	-8.37972576236072	HUES53:HUES64	0.5977232799698255	-8.37972576236072
