Update README.md

zy-optimistic · Jun 20, 2023 · b67b113 · b67b113
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diff --git a/test/simulate/README.md b/test/simulate/README.md
@@ -17,8 +17,13 @@ sort -k1V -k2n position.txt | perl move_redundant.pl > position_redun.txt
 #Introduce misassemblies by positions. Two FASTA files will be output: one for the reference and one for simulation.
 perl simu_misassembly.pl template.fasta
 
+mv *ref.fasta template.ref.fasta
+mv *simu.fasta template_simu.fasta
+
 #PacBio reads simulation
-pbsim *.ref.fasta --prefix simu_pb --depth 50 --length-min 5000 --length-max 50000 --hmm_model XXX/P6C4.model --length-mean 20000
+pbsim template.ref.fasta --prefix simu_pb --depth 50 --length-min 5000 --length-max 50000 --hmm_model XXX/P6C4.model --length-mean 20000
+
+#The template_simu.fasta is the final assembly with simulated misassemblies, and the template.ref.fasta is the reference.
 ```
 
 # Output