Index of /pub/users/ac19/Home_files/Lustre_Backup/TraDIS_Scripts_Carla

Icon  Name                                                                                                                                                                            Last modified      Size  Description
[PARENTDIR] Parent Directory - [DIR] scripts/ 2020-09-28 16:13 - [DIR] Second_test/ 2020-09-28 16:13 - [DIR] First_test/ 2020-09-28 16:13 - [   ] 9876_2#66_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [TXT] LMN3_9876#17_merged.csv 2020-09-28 14:53 0 [   ] 9876_2#25_1.fastq 2020-09-28 14:53 0 [   ] 9876_1#74_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] LMN8_9876#57_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_2#82_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [TXT] removeTag.py 2020-09-28 14:53 0 [   ] LMN5_9876#33_merged.bam 2020-09-28 14:53 0 [   ] 9876_1#1_1.notag.fastq 2020-09-28 14:53 0 [   ] LMN22_9876#74_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_1#49_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] Pseudomonas_aeruginosa_UCBPP-PA14_v1.index.sma 2020-09-28 14:53 0 [   ] 9876_2#74_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_1#82_1.notag.fastq 2020-09-28 14:53 0 [   ] LMN3_9876#17_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csvLMN1_9876#1_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv.output.pdf 2020-09-28 14:53 0 [TXT] 9876_1#49_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [TXT] 9876_2#17_1.tag.fastq 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 521350.se.markdup.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#49_1.fastq 2020-09-28 14:53 0 [   ] 9876_2#41_1.fastq 2020-09-28 14:53 0 [   ] 9876_2#82_1.fastq 2020-09-28 14:53 0 [   ] 9876_2#49_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq 2020-09-28 14:53 0 [   ] 9876_1#17_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_1#9_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] tradis_essentiality.R 2020-09-28 14:53 0 [TXT] LMN6_9876#41_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv 2020-09-28 14:53 0 [   ] 9876_1#57_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] LMN22_9876#74_merged.bam 2020-09-28 14:53 0 [   ] LMN2_9876#9_merged.bam 2020-09-28 14:53 0 [   ] 9876_2#9_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_2#33_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#57_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] 9876_1#33_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] 9876_2#17_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_2#1_1.fastq 2020-09-28 14:53 0 [   ] 9876_1#1_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [TXT] 9876_2#90_1.tag.fastq 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [TXT] LMN21_9876#66_merged.bam.insertion.csv 2020-09-28 14:53 0 [TXT] 9876_2#41_1.tag.fastq 2020-09-28 14:53 0 [TXT] LMN7_9876#49_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csvLMN5_9876#33_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv.output.csv 2020-09-28 14:53 0 [   ] LMN24_9876#90_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] filterFastQ.o 2020-09-28 14:53 0 [   ] LMN21_9876#66_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_1#41_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_2#33_1.fastq 2020-09-28 14:53 0 [   ] 9876_1#9_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#9_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] LMN22_9876#74_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#57_1.fastq 2020-09-28 14:53 0 [   ] 9876_2#90_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] bamcheck.e 2020-09-28 14:53 0 [   ] 9876_1#25_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] bamcheck.o 2020-09-28 14:53 0 [   ] entED_diff.R 2020-09-28 14:53 0 [   ] 9876_1#9_1.notag.fastq 2020-09-28 14:53 0 [   ] runSmalt.e 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_1#41_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_1#41_1.notag.fastq 2020-09-28 14:53 0 [   ] 9876_1#74_1.fastq 2020-09-28 14:53 0 [TXT] 9876_1#9_1.tag.fastq 2020-09-28 14:53 0 [   ] LMN3_9876#17_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [TXT] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.insertion.csv 2020-09-28 14:53 0 [TXT] 9876_2#17_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_1#57_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_2#25_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [TXT] runPicard.py 2020-09-28 14:53 0 [   ] 9876_1#74_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [TXT] TraDIS_plot_summary.pl 2020-09-28 14:53 0 [TXT] 9876_1#17_1.tag.fastq 2020-09-28 14:53 0 [   ] 9876_1#66_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_2#90_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#66_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] LMN7_9876#49_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [TXT] 9876_2#74_1.tag.fastq 2020-09-28 14:53 0 [TXT] 9876_1#74_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_2#49_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] 9876_2#17_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_2#74_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 521350.se.markdup.bam 2020-09-28 14:53 0 [   ] 9876_2#9_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] LMN5_9876#33_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_1#49_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [   ] 9876_2#49_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_2#57_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#66_1.fastq 2020-09-28 14:53 0 [   ] 9876_2#9_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [TXT] sortBAM.sh 2020-09-28 14:53 0 [   ] 9876_1#17_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] 9876_1#66_1.notag.fastq 2020-09-28 14:53 0 [TXT] LMN3_9876#17_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csvLMN1_9876#1_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv.output.csv 2020-09-28 14:53 0 [   ] 9876_2#17_1.fastq 2020-09-28 14:53 0 [TXT] LMN22_9876#74_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv 2020-09-28 14:53 0 [   ] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.corrected.bam 2020-09-28 14:53 0 [   ] LMN1_9876#1_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_2#41_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] LMN24_9876#90_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_1#1_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_1#74_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [   ] 9876_1#41_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [   ] Pseudomonas_aeruginosa_UCBPP-PA14_v1.embl 2020-09-28 14:53 0 [   ] LMN8_9876#57_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] convertSmalt.o 2020-09-28 14:53 0 [   ] 9876_1#74_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [TXT] 9876_2#1_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_1#82_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [TXT] LMN2_9876#9_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv 2020-09-28 14:53 0 [   ] 9876_1#49_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_1#82_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] log_4 2020-09-28 14:53 0 [   ] 9876_2#41_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [   ] typhi_tradis.R 2020-09-28 14:53 0 [TXT] LMN8_9876#57_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csvLMN5_9876#33_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv.output.csv 2020-09-28 14:53 0 [   ] 9876_2#66_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] job_name.e 2020-09-28 14:53 56 [   ] filterFastQ.e 2020-09-28 14:53 0 [   ] 9876_1#49_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#82_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [TXT] 9876_1#25_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] Pseudomonas_aeruginosa_UCBPP-PA14_v1.fa 2020-09-28 14:53 0 [TXT] 9876_2#41_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_1#82_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#41_1.fastq 2020-09-28 14:53 0 [   ] 9876_1#17_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#41_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [TXT] 9876_2#49_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_1#57_1.notag.fastq 2020-09-28 14:53 0 [   ] 9876_2#17_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] LMN8_9876#57_merged.bam 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped 2020-09-28 14:53 0 [TXT] LMN3_9876#17_merged.bam.insertion.csv 2020-09-28 14:53 0 [   ] LMN4_9876#25_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_2#74_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#74_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [TXT] LMN2_9876#9_merged.bam.insertion.csv 2020-09-28 14:53 0 [   ] LMN4_9876#25_merged.bam 2020-09-28 14:53 0 [   ] 9876_2#49_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] LMN2_9876#9_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] LMN23_9876#82_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#41_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_2#33_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [   ] runSmalt.o 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [TXT] 9876_1#66_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [TXT] 9876_1#90_1.tag.fastq 2020-09-28 14:53 0 [TXT] 9876_1#57_1.tag.fastq 2020-09-28 14:53 0 [   ] LMN3_9876#17_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#57_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [TXT] 9876_2#49_1.tag.fastq 2020-09-28 14:53 0 [   ] 9876_1#49_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_2#25_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] 9876_1#9_1.fastq 2020-09-28 14:53 0 [   ] 9876_1#9_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [   ] 9876_2#9_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_1#33_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] LMN4_9876#25_merged.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_1#1_1.notag.fastq.mapped.bam.sort.bam.corrected.bam.bai 2020-09-28 14:53 0 [   ] 9876_2#66_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_1#41_1.notag.fastq.mapped.bam 2020-09-28 14:53 0 [   ] 9876_1#25_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] LMN23_9876#82_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_1#57_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [TXT] runSmalt.sh 2020-09-28 14:53 0 [   ] 9876_1#66_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_2#90_1.notag.fastq 2020-09-28 14:53 0 [TXT] 9876_2#74_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_2#90_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_1#66_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [TXT] 9876_1#1_1.notag.fastq.mapped.bam.sort.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_2#74_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] 9876_1#74_1.notag.fastq 2020-09-28 14:53 0 [TXT] checkSAM.py 2020-09-28 14:53 0 [   ] LMN2_9876#9_merged.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_2#82_1.notag.fastq.mapped.bam.sort.bam.bamcheck 2020-09-28 14:53 0 [   ] LMN23_9876#82_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_2#49_1.notag.fastq.mapped.bam.sort.bam 2020-09-28 14:53 0 [TXT] LMN23_9876#82_merged.bam.insertion.csv 2020-09-28 14:53 0 [   ] 9876_2#9_1.notag.fastq 2020-09-28 14:53 0 [TXT] LMN1_9876#1_merged.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.csv 2020-09-28 14:53 0 [   ] 9876_2#33_1.notag.fastq.mapped 2020-09-28 14:53 0 [   ] 9876_1#33_1.notag.fastq.mapped.bam.sort.bam.Pseudomonas_aeruginosa_UCBPP-PA14_v1.insert_site_plot.gz 2020-09-28 14:53 0 [   ] 9876_1#90_1.notag.fastq.mapped.bam.sort.bam.corrected.bam 2020-09-28 14:53 0 [   ] 9876_2#66_1.fastq 2020-09-28 14:53 0 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