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fix tables for real this time
Revert "fix the navigation tables on wiki pages" This reverts commit 1c78d5acac208efcaf4c284160febd715b2ddcb0.
fix the navigation tables on wiki pages
minor edit
Updated Indexing (markdown)
Update to copy files to rnaseq working directory and set shell variables early.
Bold alerts and clarify optional sections.
Make a directory for exons/splicesites. Updated whole genome index with warning.
Use new ENV variables and GRCh38 for indexing genome.
Update the alignment reference index path and the path to FASTA that is indexed.
Remove TopHat2 and STAR
added HISAT2 alignment and indexing sections