cd /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Chordates/Heterocephalus_glaber-HetGla_female_1.0_hetGal2/bowtie-indexes; ~/programs/bowtie-0.12.9/bowtie-build -f GCA_000247695.1_HetGla_female_1.0_genomic.fa GCA_000247695.1_HetGla_female_1.0_genomic
cd /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Chordates/bosTau7; ~/programs/bowtie-0.12.9/bowtie-build -f bosTau7.fa bosTau7
cd /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Chordates/Sus_scrofa-Sscrofa10.2_susScr3/bowtie-indexes;  ~/programs/bowtie-0.12.9/bowtie-build -f GCA_000003025.4_Sscrofa10.2_genomic.fa GCA_000003025.4_Sscrofa10.2_genomic
cd /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Chordates/felCat8; ~/programs/bowtie-0.12.9/bowtie-build -f felCat8.fa felCat8