# Tophat not working??? - Deprecated tool, use HISAT2 instead

**URL:** <https://help.galaxyproject.org/t/tophat-not-working-deprecated-tool-use-hisat2-instead/2256>\
**Category:** Uncategorized\
**Tags:** troubleshooting, mapping, tool-deprecated\
**Created:** [October 9, 2019, 2:07am UTC](https://help.galaxyproject.org/t/tophat-not-working-deprecated-tool-use-hisat2-instead/2256 "2019-10-09T02:07:27Z")\
**Posts on this page:** 1\
**Showing post:** 1

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**Author:** ![rpotens007](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/rpotens007/32/1172_2.png) [@rpotens007](https://help.galaxyproject.org/u/rpotens007)\
**Post date:** [October 9, 2019, 2:07am UTC](https://help.galaxyproject.org/t/tophat-not-working-deprecated-tool-use-hisat2-instead/2256/1 "2019-10-09T02:07:27Z")

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Ran Tophat 5X on same data set that worked 2 days ago… Is Tophat down? I have deadlines to meet…

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_[View the full topic](https://help.galaxyproject.org/t/tophat-not-working-deprecated-tool-use-hisat2-instead/2256)._