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Author: chen496

kallisto/kallisto

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+#!/bin/bash
+#BSUB -J NGS128
+#BSUB -q bigmem
+#BSUB -n 10
+#BSUB -o NGS128.out
+#BSUB -e NGS128.err
+#BSUB -u [email protected]
+#BSUB -R "rusage[mem=10000]"
+#BSUB -N
+#BSUB -B
+
+./kallisto index -i index/NGS128 /nethome/xcai/WeiLi_RNAdata/index/CCDS_nucleotide.current.fna
+./kallisto quant -i index/NGS128 -o output_NGS128 /nethome/xcai/WeiLi_RNAdata/NGS128_S21_L001_R1_001.fastq /nethome/xcai/WeiLi_RNAdata/NGS128_S21_L001_R2_001.fastq
+
+
+

kallisto/kallisto_NGS128.job

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+#!/bin/bash
+#BSUB -J NGS130
+#BSUB -q bigmem
+#BSUB -n 10
+#BSUB -o NGS130.out
+#BSUB -e NGS130.err
+#BSUB -u [email protected]
+#BSUB -R "rusage[mem=10000]"
+#BSUB -N
+#BSUB -B
+
+./kallisto index -i index/NGS130 /nethome/xcai/WeiLi_RNAdata/index/CCDS_nucleotide.current.fna
+./kallisto quant -i index/NGS130 -o output_NGS130 /nethome/xcai/WeiLi_RNAdata/NGS130_S23_L001_R1_001.fastq /nethome/xcai/WeiLi_RNAdata/NGS130_S23_L001_R2_001.fastq
+
+
+

kallisto/kallisto_NGS130.job

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+Copyright ©2015. The Regents of the University of California (Regents). All
+Rights Reserved. Permission to use, copy, modify, and distribute this software
+and its documentation for educational and research not-for-profit purposes,
+without fee and without a signed licensing agreement, is hereby granted,
+provided that the above copyright notice, this paragraph and the following two
+paragraphs appear in all copies, modifications, and distributions. Contact The
+Office of Technology Licensing, UC Berkeley, 2150 Shattuck Avenue, Suite 510,
+Berkeley, CA 94720-1620, (510) 643-7201, for commercial licensing
+opportunities.
+
+Created by Nicolas Bray, Harold Pimentel, Pall Melsted and Lior Pachter,
+University of California, Berkeley
+
+IN NO EVENT SHALL REGENTS BE LIABLE TO ANY PARTY FOR DIRECT, INDIRECT, SPECIAL,
+INCIDENTAL, OR CONSEQUENTIAL DAMAGES, INCLUDING LOST PROFITS, ARISING OUT OF
+THE USE OF THIS SOFTWARE AND ITS DOCUMENTATION, EVEN IF REGENTS HAS BEEN
+ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+
+REGENTS SPECIFICALLY DISCLAIMS ANY WARRANTIES, INCLUDING, BUT NOT LIMITED TO,
+THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
+THE SOFTWARE AND ACCOMPANYING DOCUMENTATION, IF ANY, PROVIDED HEREUNDER IS
+PROVIDED "AS IS". REGENTS HAS NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT,
+UPDATES, ENHANCEMENTS, OR MODIFICATIONS.