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DATE 2022-08-01

LEARN

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MESSAGE
DATE 2022-08-31
FROM From: "Pat Schloss"
SUBJECT Subject: [Learn] [mothur] mothur v1.48.0 release / MiSeq SOP update /
From learn-bounces-at-nylxs.com Thu Sep 1 13:37:01 2022
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From: "Pat Schloss"
Date: Wed, 31 Aug 2022 15:43:37 -0400
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Subject: [Learn] [mothur] mothur v1.48.0 release / MiSeq SOP update /
workshop
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--0000000000002f1c2f05e78eb7a8
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Hello mothur users!

We are happy to announce the release of mothur v.1.48.0
. Actually... we
released 1.48 in May, but I never got around to telling anyone :) There are
a few significant things to report with this release. The main
improvements include improving the execution speed on a few functions and
completing the transition of a few functions to output/input count files
over group files. There's a few other things you might be interested in. Go
ahead and check them out over at the release page
when you get your
new version of mothur ;)

With the last version we started to shudder the use of a names and group
file throughout the mothur workflow. We showed both the old and new
workflows in the MiSeq SOP wiki page. While I think this helped
people transition, it also caused some confusion for folks. This week, I
went in and removed vestiges of the old workflow. Be sure to go check out
the MiSeq SOP page if you have
questions about how we recommend processing 16S rRNA gene sequences with
mothur. This is the workflow that we use in the lab!

Finally, I continue to put a lot of effort into developing educational
content that should be of interest to mothur users. I am posting two videos
each week to YouTube that often uses mothur-based files as input to work
within R. You can find these at the Riffomonas YouTube channel
. Earlier this year I talked a
fair amount about the problems with *not* rarefying your data in these
videos. Hopefully, I'll get a preprint up on biorxiv in the next month or
so. If you are interested in the mothur workshop I'll be running at the end
of September, be sure to check out the schedule
. If you're
looking for more updates on Riffomonas and resources for strengthening your
R skills, I have a free weekly newsletter
that you can subscribe to. I've been
encouraged by the positive feedback I've received from the content on
Riffomonas - let me know if there's anything you'd like me to be sure to
cover.

Enjoy the new release!
Pat


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Content-Transfer-Encoding: quoted-printable

Hello=C2=A0mothur=C2=A0u=
sers!

We are happy to announce the release of=C2=A0mothur=C2=A0ef=3D"https://github.com/mothur/mothur/releases/tag/v1.48.0" target=3D"_bla=
nk">v.1.48.0
. Actually...=C2=A0 we released 1.48 in May, but I never go=
t around to telling anyone :) There are a few significant things to report =
with this release. The main improvements=C2=A0include improving the executi=
on speed on a few functions and completing the transition of a few function=
s to output/input count files over group files. There's a few other thi=
ngs you might be interested in. Go ahead and check them out over at the=C2=
=A0t=3D"_blank">release page=C2=A0when you get your new version of mothur =
;)

With the last version we started to=
shudder the use of a names and group file throughout the mothur workflow. =
We showed both the old and new workflows in the MiSeq SOP wiki page. While =
I think this helped people=C2=A0transition, it also caused some confusion f=
or folks. This week, I went in and removed=C2=A0vestiges of the old workflo=
w. Be sure to go check out the /">MiSeq SOP page if you have questions about how we recommend processi=
ng 16S rRNA gene sequences with mothur. This is the workflow that we use in=
the lab!

Finally, I conti=
nue to put a lot of effort into developing educational content that should =
be of interest to mothur users. I am posting two videos each week to YouTub=
e that often uses mothur-based files as input to work within R. You can fin=
d these at the=C2=A0 target=3D"_blank">Riffomonas YouTube channel. Earlier this year I talk=
ed a fair amount about the problems with *not* rarefying your data in these=
videos. Hopefully, I'll get a preprint up on biorxiv in the next month=
or so. If you are interested in the mothur workshop I'll be running at=
the end of September, be sure to check out the as.org/workshops/2022-09-28-mothur.html">schedule.=C2=A0If you're l=
ooking for more updates on Riffomonas and resources for strengthening your =
R skills, I have a=C2=A0t=3D"_blank">free weekly newsletter=C2=A0that you can subscribe to. I&#=
39;ve been encouraged by the positive feedback I've received from the c=
ontent on Riffomonas - let me know if there's anything you'd like m=
e to be sure to cover.

Enjoy the new release!
=
Pat





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  4. 2022-08-31 From: "Pat Schloss" <pschloss-at-umich.edu> Subject: [Learn] [mothur] mothur v1.48.0 release / MiSeq SOP update /

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