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Create properties.prop
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(1) INDEX FOLDER PATH | ||
/home/sus11005/Data/CODE/SPLICED/DATA/NEW/MAIN_INDEX/chr | ||
(2) MAP FILE PATH | ||
/home/sus11005/Data/CODE/SPLICED/DATA/NEW/MAP/map_50.sam | ||
(3) UMRQ FILE PATH | ||
/home/sus11005/Data/CODE/SPLICED/DATA/NEW/MAP/umrs_50.fq | ||
(4) UMRS FILE PATH | ||
/home/sus11005/Data/CODE/SPLICED/DATA/NEW/MAP/umrs_50.fa | ||
(5) READS FILE PATH | ||
/home/sus11005/Data/CODE/SPLICED/DATA/NEW/READS/50.1.fastq | ||
(6) COVERAGE FILE PATH | ||
/home/sus11005/Data/CODE/SPLICED/DATA/NEW/MAP/coverage_50.cov | ||
(7) NUMBER OF MISMATHES FOR FULL ALIGBMENT | ||
2 | ||
(8) NUMBER OF MISMATCHES FOR GAPPED ALIGNMENT | ||
1 | ||
(9) MAX NUMBER OF ALIGNMENT | ||
100 | ||
(10) NUMBER OF THREADS TO BE USED BY BOWTIE | ||
10 | ||
(11) LENGTH OF CONSENSUS | ||
108 | ||
(12) NAME OF THE SEQUENCE | ||
chr1 | ||
(13) PRE-PROCESS | ||
off | ||
(14) HAMMING DISTANCE THRESHOLD | ||
1.2 | ||
(15) SEARCH SPACE LENGTH | ||
60000 | ||
(16) MAX RELATIVE ALIGNMENT | ||
10 | ||
(17) SEQUENCE FILE FOLDER | ||
/home/sus11005/Data/CODE/ERGC/TAR/HG19/ | ||
(18) OVERLAP LENGTH | ||
48 | ||
(19) OVERLAP HAMMING DISTANCE | ||
2 | ||
(20) NUMBER OF THREADS TO BE USED BY POMP | ||
1 | ||
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