2014-07-10

1. use simply_locus_sample_pair to generate locus_sample pair first

2. any other analysis should go from there

python /Bioinformatics/Users/zfu/HLA_Typing/src/HLA_Typing_Parsing_Codes/simply_locus_sample_pair.py /Bioinformatics/NGS_raw_data/LIAI/MiSeq/HLA_Typing_Runs/Run52_5loci/5loci_pooling /Bioinformatics/Users/zfu/HLA_Typing/Run52_5loci_pooling

python /Bioinformatics/Users/zfu/HLA_Typing/src/HLA_Typing_Parsing_Codes/5loci_pooling.py /Bioinformatics/NGS_raw_data/LIAI/MiSeq/HLA_Typing_Runs/Run52_5loci/original /Bioinformatics/NGS_raw_data/LIAI/MiSeq/HLA_Typing_Runs/Run52_5loci/5loci_pooling_original

Difference between V8.0_HF_105 and V8.0_105

1. 4 digits set should > 2
2. full length coverage reads > 1


mkdir /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_118
sed -e 's/HF_100/HF_118/g' /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_100/runTyping.py > /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_118/runTyping.py
python /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_118/runTyping.py

source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_101/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_102/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_103/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_104/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_110/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_106/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_107/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_108/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_109/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_111/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_112/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_113/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_114/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_115/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_116/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_117/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_118/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_119/QSUB_SUBMIT.sh
source /Bioinformatics/Users/zfu/HLA_Typing/ARCHIVE_DONOT_DELETE/V8.0_HF_120/QSUB_SUBMIT.sh