Differences

This shows you the differences between two versions of the page.

--- masurca-software [2014/11/02 10:30] – aorth
+++ masurca-software [2023/06/26 09:07] (current) – aorth
@@ Line 1: / Line 1: @@
 ====== MaSuRCA ======
-MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches. MaSuRCA can assemble data sets containing only short reads from Illumina sequencing or a mixture of short reads and long reads (Sanger, 454).
+The MaSuRCA (Maryland Super Read Cabog Assembler) assembler combines the benefits of deBruijn graph and Overlap-Layout-Consensus assembly approaches. Since version 3.2.1 it supports hybrid assembly with short Illumina reads and long high error PacBio/MinION data.
 ===== Information =====
-  * Version: 2.3.2
+  * Version: 4.1.0
   * Added: September, 2014
-  * Link: http://www.genome.umd.edu/masurca.html
+  * Updated: June, 2023
+  * Link: https://github.com/alekseyzimin/masurca
 ===== Usage =====
-=== See versions of masurca which are available ===
+See versions which are available:
-<code>module avail masurca</code>
+<code>$ module avail masurca</code>
+Load one version into your environment and run it:
+<code>$ module load masurca/4.1.0
+$ masurca</code>
 ===== Installation ======
@@ Line 17: / Line 22: @@
 <code>$ cd /tmp
-$ wget 'http://www.genome.umd.edu/download_masurca.php?a=YS5vcnRoQGNnaWFyLm9yZw&b=src&c=38900637&d=47784a9fd97c4cc396300a9c11cc9ab3096b11c3' -O MaSuRCA-2.3.2.tar.gz
+$ wget https://github.com/alekseyzimin/masurca/releases/download/v4.1.0/MaSuRCA-4.1.0.tar.gz
-$ tar xf MaSuRCA-2.3.2.tar.gz
+$ tar xf MaSuRCA-4.1.0.tar.gz
-$ cd MaSuRCA-2.3.2
+$ cd MaSuRCA-4.1.0
-$ mkdir -p /export/apps/masurca/2.3.2
+$ sudo mkdir /export/apps/masurca/4.1.0
-$ sudo chown aorth /export/apps/masurca/2.3.2
+$ sudo chown aorth /export/apps/masurca/4.1.0
-$ scl enable devtoolset-2 bash
+$ DEST=/export/apps/masurca/4.1.0 ./install.sh
-$ DEST=/export/apps/masurca/2.3.2 ./install.sh
+$ sudo chown -R root:root /export/apps/masurca/4.1.0</code>
-$ sudo chown -R root:root /export/apps/masurca/2.3.2</code>
-Get a download link for the tarball from: http://www.genome.umd.edu/masurca_form.html