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--- cluster:73 [2021/08/19 12:53]
hmeij07 [Sequencing Tools #4]
+++ cluster:73 [2021/08/19 13:03]
hmeij07 [Kallisto & Trinity & FastQC]
@@ Line 964: / Line 964: @@
   * location: /share/apps/FastQC/0.11.8
   * https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
-  * biolab (jcoolon, tearley)
+  * requires centos6, may not run on centos7
+    * queues: hp12, tinymem, mw256fd mw128
+    * debug server swallowtail
+  * biolab (coolonlab, tearley)
@@ Line 974: / Line 977: @@
 <code>
+# env
 export PATH="/share/apps/CENTOS6/miniconda2/bin:$PATH"
 export LD_LIBRARY_PATH="/share/apps/CENTOS6/miniconda2/lib:$LD_LIBRARY_PATH"
@@ Line 987: / Line 991: @@
   hdf5               conda-forge/linux-64::hdf5-1.10.3-hba1933b_1001
   kallisto           bioconda/linux-64::kallisto-0.45.0-hdcc98e5_0
+# --- //[[hmeij@wesleyan.edu|Henk]] 2021/08/19 08:55//
+# Added packages below for Prof Coolon's lab (skalra)
+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
 </code>

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