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Home modified by Filip Wierzbicki

Filip Wierzbicki — Wed, 13 Apr 2022 09:14:30 -0000

--- v11
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 * [FlankDesign]

 # Citation
-Filip Wierzbicki, Florian Schwarz, Odontsegtseg Cannalonga, and Robert Kofler; Generating high quality assemblies for genomic analysis of transposable elements
-bioRxiv
+Wierzbicki F, Schwarz F, Cannalonga O, Kofler R. Novel quality metrics allow identifying and generating high-quality assemblies of piRNA clusters. *Mol Ecol Resour.* 2022,*22*,102-121. doi:10.1111/1755-0998.13455
+
+Filip Wierzbicki and Florian Schwarz contributed equally to this work.

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Home modified by Filip Wierzbicki

Filip Wierzbicki — Thu, 15 Apr 2021 12:14:17 -0000

--- v10
+++ v11
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 * [CUSCO]
 * [TELandscapeMetrics]
 * [piRNAclusterAlign]
+* [FlankDesign]

 # Citation
 Filip Wierzbicki, Florian Schwarz, Odontsegtseg Cannalonga, and Robert Kofler; Generating high quality assemblies for genomic analysis of transposable elements

Home modified by Filip Wierzbicki

Filip Wierzbicki — Mon, 08 Jun 2020 12:17:13 -0000

--- v9
+++ v10
@@ -11,6 +11,7 @@
 # Walkthrough
 * [CUSCO]
 * [TELandscapeMetrics]
+* [piRNAclusterAlign]

 # Citation
 Filip Wierzbicki, Florian Schwarz, Odontsegtseg Cannalonga, and Robert Kofler; Generating high quality assemblies for genomic analysis of transposable elements

Home modified by Robert Kofler

Robert Kofler — Mon, 23 Mar 2020 11:48:03 -0000

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 * [CUSCO]
 * [TELandscapeMetrics]

-This is the default page, edit it as you see fit. To add a new page simply reference it within brackets, e.g.: [SamplePage].
-
-The wiki uses [Markdown](/p/cuscoquality/wiki/markdown_syntax/) syntax.
+# Citation
+Filip Wierzbicki, Florian Schwarz, Odontsegtseg Cannalonga, and Robert Kofler; Generating high quality assemblies for genomic analysis of transposable elements
+bioRxiv

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Home modified by Robert Kofler

Robert Kofler — Mon, 23 Mar 2020 11:41:38 -0000

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 [TOC]

 # Introduction
-We introduce four novel assembly quality metrics that assess the suitability of an assembly for genomic analysis of TEs..
-In particular we ask if piRNA clusters are contiguously assembled (CUSCO) and if an assembly accurately captures the TE landscape of an organisms (three TE landscape metrics). Here we provide a manual for each script and a walkthrough.
+We introduce four novel assembly quality metrics that assess the suitability of an assembly for genomic analysis of TEs.
+In particular we ask if piRNA clusters are contiguously assembled (CUSCO) and if an assembly accurately captures the TE landscape of an organisms (three TE landscape metrics).  Here we provide a manual for each script and a walkthrough.

 # Manual

Home modified by Robert Kofler

Robert Kofler — Thu, 19 Mar 2020 13:56:51 -0000

Home modified by Robert Kofler

Robert Kofler — Thu, 19 Mar 2020 13:56:35 -0000

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 # Manual

-* [CUSCOscripts]
-* [TELandscapeMetricsScripts]
+* [Manual] explanation of the scripts and of the parameters

 # Walkthrough
 * [CUSCO]

Home modified by Robert Kofler

Robert Kofler — Tue, 17 Mar 2020 14:38:44 -0000

Home modified by Robert Kofler

Robert Kofler — Mon, 16 Mar 2020 17:47:59 -0000

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 [TOC]

 # Introduction
+We introduce four novel assembly quality metrics that assess the suitability of an assembly for genomic analysis of TEs..
+In particular we ask if piRNA clusters are contiguously assembled (CUSCO) and if an assembly accurately captures the TE landscape of an organisms (three TE landscape metrics). Here we provide a manual for each script and a walkthrough.

 # Manual

 * [CUSCOscripts]
-* [TELandscapeMetrics]
+* [TELandscapeMetricsScripts]

 # Walkthrough
 * [CUSCO]

Home modified by Robert Kofler

Robert Kofler — Mon, 16 Mar 2020 17:45:20 -0000

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 # Introduction

 # Manual
+
+* [CUSCOscripts]
+* [TELandscapeMetrics]

 # Walkthrough
 * [CUSCO]