# Please update your ribosomal RNA depletion database

**URL:** <https://forum.biobakery.org/t/please-update-your-ribosomal-rna-depletion-database/691>\
**Category:** KneadData\
**Created:** [July 9, 2020, 1:22pm UTC](https://forum.biobakery.org/t/please-update-your-ribosomal-rna-depletion-database/691 "2020-07-09T13:22:39Z")\
**Posts on this page:** 2\
**Page:** 1

<div class="post-metadata">

**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\
**Post date:** [July 9, 2020, 1:22pm UTC](https://forum.biobakery.org/t/please-update-your-ribosomal-rna-depletion-database/691/1 "2020-07-09T13:22:39Z")

</div>

Dear KneadData users - We’ve just released an important update to KneadData’s SILVA-based database for depletion of microbial ribosomal sequences from metatranscriptomes. This update fixes a critical issue with U characters in the input sequences not being properly indexed by bowtie2 for downstream mapping.

The updated database file is [available here](http://huttenhower.sph.harvard.edu/kneadData_databases/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_v0.2.tar.gz). You can automatically update your local database using this command:

```auto
kneaddata_database --download ribosomal_RNA bowtie2 $DIR

```

---

<div class="post-metadata">

**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\
**Post date:** [July 9, 2020, 1:23pm UTC](https://forum.biobakery.org/t/please-update-your-ribosomal-rna-depletion-database/691/2 "2020-07-09T13:23:05Z")

</div>