The meaning of minus cp about accucopy HOT 11 CLOSED

purity	ploidy	ploidy_naive	rc_ratio_of_cp_2	segment_stddev_divider	snp_maf_stddev_divider	snp_coverage_min snp_coverage_var_vs_mean_ratio	period_discover_run_type	no_of_peaks_for_logL
0.10768	1.9197	1.9444	1003	20	20	2	10	1	3
logL	period	best_no_of_copy_nos_bf_1st_peak	first_peak_int
1.7805e+07	54	1	948
no_of_segments	no_of_segments_used	no_of_snps	no_of_snps_used
171	171	1660150	1660045

### candidate period_int: 54
Finding first peak, period_int: 54, within bounds of (10-1063)... 
  best_first_peak center: 951
  sum of window count at all periodic peaks: 1.68742e+06
  half_width_int: 9
 Find_first_peak_ab_init() for period: 54
  first peak: 951
  lower bound: 942
  upper bound: 960
  Tallest peak index=1, peak_center_int=1003, no_of_windows=4635697.
  First peak's peak_index=0, peak_center_int=948, no_of_windows=1580.
  no_of_copy_nos_bf_1st_peak_prior=1
  max_no_of_copy_nos_bf_1st_peak=1
 best_logL_snp: -1.60619e+06
 no_of_peaks_for_logL: 3
 purity: 0.107677
 ploidy: 1.94444
 logL: 1.78047e+07
### candidate period_int: 179
Finding first peak, period_int: 179, within bounds of (10-1094)... 
  best_first_peak center: 1005
  sum of window count at all periodic peaks: 1.68649e+06
  half_width_int: 12
 Find_first_peak_ab_init() for period: 179
  first peak: 1005
  lower bound: 993
  upper bound: 1017
  Tallest peak index=0, peak_center_int=1003, no_of_windows=4635697.
  First peak's peak_index=0, peak_center_int=1003, no_of_windows=4635697.
  no_of_copy_nos_bf_1st_peak_prior=2
  max_no_of_copy_nos_bf_1st_peak=2
 best_logL_snp: -1.60556e+06
 no_of_peaks_for_logL: 3
 purity: 0.356929
 ploidy: 1.98324
 logL: 1.77938e+07
### Best period from likelihood: 54
  best_purity: 0.107677
  best_ploidy: 1.94444
  Q: 1003
  logL: 1.78047e+07
  best_no_of_copy_nos_bf_1st_peak: 1
  first_peak_center: 948
  first_peak_half_width: 11
Outputting copy number to  /mnt/INPUT/OS0130_PC_Accucopy_output/cnv.output.tsv
	copy number: 1
	copy number: 2
	copy number: 3
	copy number: 4
	copy number: 5
	copy number: 6
	copy number: 7
	copy number: 8
	copy number: 9
	copy number: 10
	copy number: 11
	copy number: 12
	copy number: 13
	copy number: 14
	copy number: 15
	copy number: 16
	copy number: 17
	copy number: 18
	copy number: 19
	copy number: 20
	copy number: 21
	copy number: 22
	copy number: 23
	copy number: 24
	copy number: 25
	copy number: 26
	copy number: 27
	copy number: 28
	copy number: 29
	copy number: 30
	copy number: 31
	copy number: 32
	copy number: 33
	copy number: 34
	copy number: 35
	copy number: 36
	copy number: 37
	copy number: 38
For subclone regions
Warning: For segment chr1: 124616001-124912000. The no_of_snps, -1, <=0. So skip calculate for that segment.
Warning: For segment chr1: 121887501-122738000. The no_of_snps, -1, <=0. So skip calculate for that segment.
CNV output done. ploidy_cnv_all=1.91968 ploidy_clonal=1.99458
Outputting logL ...Done.
Outputting SNP logORs by peaks to /mnt/INPUT/OS0130_PC_Accucopy_output/snp_logOR_by_peak.tsv ... 9 peaks with valid data.
Outputting RC ratio of peaks to /mnt/INPUT/OS0130_PC_Accucopy_output/rc_ratios_of_peaks_of_best_period.tsv ...  762 segments.
Outputting peak bounds to /mnt/INPUT/OS0130_PC_Accucopy_output/peak_bounds.tsv ...  38 peaks.