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dir-tree.txt
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dir-tree.txt
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|-data
| |-2019-Muridae-NSF-Genomics-Status-11.19.19.csv
| |-exome-spades-stats.csv
| |-multiqc
| |-sample-summary.csv
| |-summary-exomes-long.csv
| |-summary-exomes.csv
|-01-Assembly-scripts
| |-01_fastp_cmd_generator.py
| |-02_decon_cmd_generator.py
| |-03A_merge_cmd_generator.py
| |-03B_map_cmd_generator.py
| |-04A_dedup_cmd_generator.py
| |-04A_reformat_cmd_generator.py
| |-04B_bam_merge_cmd_generator.py
| |-05A_spades_cmd_generator.py
| |-data
| |-helper
| |-jobs
| |-lib
| |-submit
| |-logs
|-01-Assembly-data
| |-00-RawReads
| |-01-Fastp
| |-02-Decon
| |-03A-Merged
| |-03B-MappedMouse
| |-03B-MappedRat
| |-04A-Dedup
| |-04B-GATKMouse
| |-04B-GATKRat
| |-05A-Spades
| |-Contamination_Genomes
| |-04A-Reformat
| |-sample-assemblies
|-Targets
| |-targets-rnor6-coords.bed
| |-mm9_to_mm10_targeted_regions.bed
| |-110624_MM9_exome_L2R_D02_EZ_HX1.bed.targeted_regions.bed
| |-rnor6.targeted_regions.4field.bed
| |-110624_MM9_exome_L2R_D02_EZ_HX1.bed.tiled_regions.bed
| |-mm9_to_mm10_tiled_regions.bed
| |-targets-mm10-coords.bed
| |-tiles-mm10-coords.bed
|-02-Annotation-data
| |-selected-transcripts.txt
| |-mouse-rat-orths-ens99.txt
| |-transcript-seq-OLD
| |-transcript-seq
|-02-Annotation-scripts
| |-select_transcripts.py
| |-get_selected_seqs.py
| |-intron_sizes.py
| |-get_selected_seqs-OLD.log
| |-tmp.fa
| |-submit
| |-get_selected_seqs.log
|-Reference-genomes
| |-mm10
| |-Rnor6
|-lib
| |-mcore.py
| |-mseq.py
| |-globs.py
| |-resort.py
| |-mfiles.py
|-dir-tree.txt