changeset 3:752bd9400127 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/bowtie_indices_ged.loc.sample	Mon May 12 12:24:28 2014 -0400
@@ -0,0 +1,49 @@
+#This is a file adapted from bowtie_indices.loc
+#<unique_name>	<file_base_path>
+#
+Dmel	/home/galaxy/galaxy-dist/bowtie/Dmel/dmel-all-chromosome-r5.49
+Dmel_2R	/home/galaxy/galaxy-dist/bowtie/Dmel_2R/Dmel_2R
+Dmel_all-gene_extended2000	/home/galaxy/galaxy-dist/bowtie/Dmel_all-gene_extended2000/dmel-all-gene_extended2000-r5.49
+Dmel_all_genes	/home/galaxy/galaxy-dist/bowtie/Dmel_all-gene/Dmel_all-gene
+Dmel_all-intergenic	/home/galaxy/galaxy-dist/bowtie/Dmel_all-intergenic/dmel-all-intergenic-r5.49
+Dmel_all-intron	/home/galaxy/galaxy-dist/bowtie/Dmel_all-intron/dmel-all-intron-r5.49
+Dmel_all-miscRNA	/home/galaxy/galaxy-dist/bowtie/Dmel_all-miscRNA/dmel-all-miscRNA-r5.49
+Dmel_all-ncRNA	/home/galaxy/galaxy-dist/bowtie/Dmel_all-ncRNA/dmel-all-ncRNA-r5.49
+Dmel_all-tRNA	/home/galaxy/galaxy-dist/bowtie/Dmel_all-tRNA/dmel-all-tRNA-r5.49
+Ensembl_extented_tRNA	/home/galaxy/galaxy-dist/bowtie/Ensembl_Dmel_extended_tRNA/Ensembl_Dmel_extended_tRNA
+Dmel_all-transcript	/home/galaxy/galaxy-dist/bowtie/Dmel_all-transcript/dmel-all-transcript-r5.49
+Dmel_all-transposon	/home/galaxy/galaxy-dist/bowtie/Dmel_all-transposon/dmel-all-transposon-r5.49
+Dmel_all-transposon_merge	/home/galaxy/galaxy-dist/bowtie/Dmel_all-transposon_merged/Dmel_all-transposon_merge
+Dmel_all-transposon_merge_minBrennecke	/home/galaxy/galaxy-dist/bowtie/Dmel_all-transposon_merged_min_Brennecke/Dmel_all-transposon_merged_min_Brennecke
+Transposons_set_BDGBv941	/home/galaxy/galaxy-dist/bowtie/transposons_set/Dmel_transposon_set_BDGP_v941
+Ensembl_transposon_set	/home/galaxy/galaxy-dist/bowtie/Ensembl_transposon_set/Ensembl_transposon_set
+piRNA_clusters	/home/galaxy/galaxy-dist/bowtie/piRNA_clusters/piRNA_clusters
+dme_miR_r18	/home/galaxy/galaxy-dist/bowtie/dme_miR_r18/dme_miR_r18
+dme_miR_r20	/home/galaxy/galaxy-dist/bowtie/dme_miR_r20/dme_miR_r20
+mmus_miR_r19	/home/galaxy/galaxy-dist/bowtie/mmus_miR_r19/mmus_miR_r19
+mmus_miR_r20	/home/galaxy/galaxy-dist/bowtie/mmus_miR_r20/mmus_miR_r20
+hs_miR_r18	/home/galaxy/galaxy-dist/bowtie/hs_miR_r18/hs_miR_r18
+PlacW	/home/galaxy/galaxy-dist/bowtie/PlacW/PlacW
+#PlacZ_common	/home/galaxy/galaxy-dist/bowtie/PlacZ_common/PlacZ_common
+#P1152	/home/galaxy/galaxy-dist/bowtie/P1152/P1152
+P1152	/home/galaxy/galaxy-dist/bowtie/complete_P1152/complete_P1152
+P-element	/home/galaxy/galaxy-dist/bowtie/P-element/P-element
+esi1_esi2	/home/galaxy/galaxy-dist/bowtie/esi1_esi2/esi1_esi2
+EGFP	/home/galaxy/galaxy-dist/bowtie/EGFP/EGFP
+TasB	/home/galaxy/galaxy-dist/bowtie/TasB/TasB
+TAS2R	/home/galaxy/galaxy-dist/bowtie/TAS2R/TAS2R
+TAS3R	/home/galaxy/galaxy-dist/bowtie/TAS3R/TAS3R
+mm9	/home/galaxy/galaxy-dist/bowtie/mm9/mm9
+42AB	/home/galaxy/galaxy-dist/bowtie/42AB/42AB
+flamenco	/home/galaxy/galaxy-dist/bowtie/flamenco/flamenco
+insect_viruses	/home/galaxy/galaxy-dist/bowtie/insect_viruses/viruses
+#David_mmus_r19	/home/galaxy/galaxy-dist/bowtie/David_mmus_r19/David_mmus_r19
+Onyong	/home/galaxy/galaxy-dist/bowtie/Onyong/Onyong
+A.gambiae_redundant	/home/galaxy/galaxy-dist/bowtie/AgamP3.17/AgamP3.17
+A.gambiae_masked	/home/galaxy/galaxy-dist/bowtie/Agam_Pest3/Agam_Pest3
+Agam_all-cDNAs	/home/galaxy/galaxy-dist/bowtie/AgamP3.17_all-transcripts/AgamP3.17_all-transcripts
+AgamP3.17_all_stranded_genes	/home/galaxy/galaxy-dist/bowtie/AgamP3.17_all_stranded_genes/AgamP3.17_all_stranded_genes
+Agam_ribosomal	/home/galaxy/galaxy-dist/bowtie/Agam_ribosomal/Agam_ribosomal
+Agam_miR_r19	/home/galaxy/galaxy-dist/bowtie/aga_miR_r19/aga_miR_r19
+AgamP3.17_miscRNA-rRNA-snoRNA-snRNA-tRNA	/home/galaxy/galaxy-dist/bowtie/AgamP3.17_miscRNA-rRNA-snoRNA-snRNA-tRNA/AgamP3.17_miscRNA-rRNA-snoRNA-snRNA-tRNA
+AgamP3.17_RepeatMasker	/home/galaxy/galaxy-dist/bowtie/AgamP3.17_RepeatMasker/AgamP3.17_RepeatMasker