SNP and indel calling in Bisulfite data

[haitham]

I am working on a bisulfite-treated sequence and I am interested in the SNP, indels, and methylated sites. I have used Bismark and bowtie2 to map the data and call methylation sites. I have used bissnp to call SNP locations and methylation levels. I am still searching for a tool to call indels, can I use any generic tool to call indels in bisulfite data, e.g. Dindel, GATK, SAMTools?

Another question my data is mixed from 6 people, I am worried that my analysis will be wrong? how should I handle the pooled data?
Thanks for your help