Merging merge_2.5 branch into master

[corey-hayford]

Adding in previous filename fix and explicit non-inclusion of introns. Primary purpose of upgrade is that the new update has 10x automatic chemistry detection.

[github-actions]

This PR is against the master branch ❌

• Do not close this PR
• Click Edit and change the base to dev
• This CI test will remain failed until you push a new commit

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Hi @corey-hayford,

It looks like this pull-request is has been made against the Cellarity/nfcore-scrnaseq master branch.
The master branch on nf-core repositories should always contain code from the latest release.
Because of this, PRs to master are only allowed if they come from the Cellarity/nfcore-scrnaseq dev branch.

You do not need to close this PR, you can change the target branch to dev by clicking the "Edit" button at the top of this page.
Note that even after this, the test will continue to show as failing until you push a new commit.

Thanks again for your contribution!

[corey-hayford]

So sorry - this is a mistake. Please disregard