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Update Usage.txt
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Qichao Yu authored Dec 13, 2017
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Expand Up @@ -18,7 +18,7 @@ Usage: perl 01discordant_v2.pl -bamlist <string> -refTEs <string> [-outDir <stri
Note:
1. 01discordant_v2.pl requires samtools(v1.0 or later), BLAST (v2.2.15 or later).
2. Samtools and BLAST should be exported to .bashrc before running SID.
3. The BAM file as input should have XT/X1/MD tags. If the bamlise contain more than 1 file, the BAM should have RG tag.
3. The BAM file as input should have XT/X1/MD tags. If the bamlist contain more than 1 file, the BAM should have RG tag.

Example:
perl 01discordant_v2.pl -bamlist BamList.txt -refTEs TE.fa -outDir /USER/TE/TEST -nosplit -name Human_TE
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