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Update README.md
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Qichao Yu authored Apr 26, 2017
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Input files preparation
==================
1. BAM file: paired-end sequencing data aligned by BWA aln
1. BAM file: paired-end sequencing data aligned by BWA aln. At least containing XT/X1/MD tags.
2. FASTA file: The sequence of non-reference TEs and human reference genome. Both of them need BLAST indices.


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4. The parameter of '-run' cannot be used at present, and we will fix it soon.
5. Please export the path of BLAST and Samtools to .bashrc before running SID.

Demo case
Demo
==================
An example of how to use SID and the demo input and output of SID. I uploaded the demo case to Google.
An example of how to use SID and the demo input and output of SID. I uploaded an example to Google drive.
Please contact me if any questions: [email protected] or [email protected]

https://drive.google.com/file/d/0B-5j9b_mSd_GaEI1eUxvamh2SWM/view?usp=sharing
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