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--- cluster:73 [2021/08/19 12:36]
hmeij07 [Sequencing Tools #4]
+++ cluster:73 [2021/08/19 12:58]
hmeij07 [Kallisto & Trinity & FastQC]
@@ Line 18: / Line 18: @@
 on either cottontail2 or node n33 located at /share/apps/CENTOS6 \\
 Some compilations require 7.x and are in /share/apps/CENTOS7 \\
+====== Miniconda2 =====
+  * miniconda2 (python 2.7) is hiding in section
+  * "Kallisto & Trinity & FastQC"
+    * some packages require centos 6 (like cufflinks)
+  * many packages are also available in miniconda3 section
+    * requires centos 7 (python 3.9)
 ====== Sequencing Tools #4 ======
@@ Line 965: / Line 973: @@
 <code>
+ --- //[[hmeij@wesleyan.edu|Henk]] 2021/08/19 08:55//
+\\
+Added packages below for Prof Coolon's lab (skalra)
+<code>
+conda list | egrep -i "samtools|bowtie2|bedtools|cufflinks"
+bedtools                  2.30.0               h7d7f7ad_1    bioconda
+bowtie2                   2.3.5.1          py27he513fc3_0    bioconda
+cufflinks                 2.2.1                    py27_2    bioconda
+samtools                  1.13                 h8c37831_0    bioconda
+</code>
 export PATH="/share/apps/CENTOS6/miniconda2/bin:$PATH"

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