Disk Directory

1. Titisee

   • '$RECYCLE.BIN'
   • 180119_M03701_0115_000000000-BFG46.zip
   • 3rd_party
   • Anna11_assemblies
   • Anna11_trees
   • bengal_results_v1_2018
   • ConsPred_prokaryotic_genome_annotation
   • damian_DEL
   • damian_v201016
   • Data_Amir_PUBLISHED (*)
   • Data_Anastasia_RNASeq
   • Data_Anna4_SNP
   • Data_Anna5_SNP_rsync_error
   • Data_Anna9_OXA-48_or_OXA-181
   • Data_Francesco_16S
   • Data_Holger_Pseudomonas_aeruginosa_SNP
   • Data_Holger_S.epidermidis_long
   • Data_Holger_S.epidermidis_short
   • Data_Holger_VRE
   • Data_Marc_RNA-seq_Sepidermidis
   • Data_Nico_Gagliani
   • Data_Nicola_Schaltenberg
   • Data_Nicola_Schaltenberg_PICRUSt
   • Data_Nicole10_16S_interlab_PUBLISHED (*)
   • Data_Nicole6_HEV_4_SNP_calling_PE_DEL
   • Data_Nicole6_HEV_4_SNP_calling_SE_DEL
   • Data_Nicole6_HEV_new_orig_fastqs
   • Data_Nicole6_HEV_Swantje
   • Data_Nina1_Nicole7
   • Data_Tam_Acinetobacter_baumannii
   • Data_Ute_MKL1
   • Data_Ute_RNA_1_2
   • Data_Ute_RNA_4
   • Data_Ute_RNA_4_2022-11_test
   • DO.pdf
   • Eigene_Ordner_HR
   • GAMOLA2
   • GAMOLA2_prototyp
   • HOME_FREIBURG
   • MAGpy_db
   • 'System Volume Information'
   • Thomas_methylation_EPIC_DO
   • TRASH
   • UGENE_v1_32_data_cistrome
   • UGENE_v1_32_data_ngs_classification

2. Denise_ChIPseq

   • '$RECYCLE.BIN'
   • ALL_trimmed_part_DEL
   • coi_disclosure.docx
   • Data_Amir_PUBLISHED_DEL
   • Data_Anna12_HAPDICS_final_not_finished_DEL
   • Data_Anna_Mixta_hanseatica_PUBLISHED (*)
   • Data_Arck_16S_MMc_PUBLISHED (*)
   • Data_Caroline_RNAseq_brain_organoids
   • Data_Caroline_RNAseq_wt_timecourse
   • Data_Damian
   • Data_Denise_ChIPSeq_Protocol1
   • Data_Denise_ChIPSeq_Protocol2
   • Data_Denise_LTtrunc_H3K27me3_2_results_DEL
   • Data_Denise_LTtrunc_H3K4me3_2_results_DEL
   • Data_download_virus_fam
   • Data_Gunnar_Yersiniomics_COPYFAILED_DEL
   • Data_HepE_Freiburg_PUBLISHED (*)
   • Data_INTENSO_2022-06
   • Data_Jingang
   • Data_Laura_ChIPseq_GSE120945
   • Data_Nicole6_HEV_ownMethod
   • Data_Nicole6_HEV_ownMethod_new
   • Data_Paul_and_Marc_Epidome_batch3
   • Data_Pietschmann_HCV_Amplicon
   • Data_Soeren_RNA-seq_2023_PUBLISHING (*)
   • Data_Susanne_16S_re_UNPUBLISHED
   • Data_Susanne_16S_UNPUBLISHED
   • Data_Svenja_RSV_Probe3_PUBLISHING (*)
   • Data_Ute
   • HD04-1.fasta
   • m_aepfelbacher_DEL
   • RNAHiSwitch
   • RNAHiSwitch_
   • RNAHiSwitch__
   • RNAHiSwitch___
   • RNAHiSwitch_milestone1
   • RNAHiSwitch_milestone1_DELETED
   • RNAHiSwitch_paper
   • RNAHiSwitch_paper_
   • RNAHiSwitch_paper_DELETED
   • RNAHiSwitch_paper.tar.gz
   • ST772_DEL
   • 'System Volume Information'
   • Ute_miRNA_results_38
   • Ute_RNASeq_results

3. Elements1 (An14_RNAs)

   • '$RECYCLE.BIN'
   • chromhmm-enhancers
   • Data_16S_arckNov
   • Data_16S_arckNov_re
   • Data_16S_arckNov_review_PUBLISHED (*)
   • Data_Anna10_RP62A
   • Data_Anna14_RNASeq_plus_public (#)
   • Data_Anna14_RNASeq_to_be_DEL
   • Data_Anna_Cutibacterium_acnes_DEL
   • Data_ChIPSeq_Laura
   • Data_Denise_LTtrunc_Methylation
   • Data_Denise_sT_Methylation
   • Data_Hannes_ChIPSeq
   • Data_Holger_Klebsiella_pneumoniae_SNP_PUBLISHING (*)
   • Data_Kieler_Sepi_Staemme
   • Data_Nicole12_16S_Kluwe_Bunders
   • Data_Pietschmann_RSV_Probe2_PUBLISHED (*)
   • Data_RNA188_Paul_Becher
   • Data_Silvia_RNASeq_SUBMISSION
   • Data_Susanne_Amplicon_RdRp_orf1_2
   • Data_Tabea_RNASeq
   • Data_Tabea_RNASeq_submission
   • Fastqs
   • host_refs
   • j_huang_raw_fq
   • nr_gz_README
   • 'System Volume Information'
   • tmp
   • Vraw

4. Elements (Anna C.arnes)

   • '$RECYCLE.BIN'
   • ChIPSeq_pipeline_desc.docx
   • ChIPSeq_pipeline_desc.fodt
   • ChIPSeq_pipeline_desc.pdf
   • Data_16S_Leonie_from_Nico_Gaglianis
   • Data_Anna_C.acnes_PUBLISHED (*#)
   • Data_Denise_LT_DNA_Bindung
   • Data_Denise_LT_K331A_RNASeq
   • Data_Denise_RNASeq_GSE79958
   • Data_Luise_Epidome_batch1
   • Data_Luise_Epidome_batch2
   • Data_Luise_Epidome_test
   • Data_Luise_Pseudomonas_aeruginosa_PUBLISHED (*)
   • Data_Nicole6_HEV_benchmark
   • Data_Nicole6_HEV_Swantje1_blood
   • Data_Susanne_spatialRNA_2022.9.1_backup
   • Data_Swantje_HEV_using_viral-ngs
   • Data_Tam_RNASeq3
   • Fastqs_19-21
   • picrust2_out_2024_2
   • RNASeq_pipeline_desc.docx
   • RNASeq_pipeline_desc.pdf
   • 'System Volume Information'
   • VIPER_static_DEL

5. Elements (j_huang_until_201904)

   • '$RECYCLE.BIN'
   • bacteria_refseq
   • bacteria_refseq.zip
   • Data_2019_April
   • Data_2019_August
   • Data_2019_July
   • Data_2019_June
   • Data_2019_May
   • Data_2019_September
   • Data_Becher_Damian_Picornavirus_BovHepV
   • Data_Laura_MP_RNASeq
   • Data_Nicole6_HEV_Swantje2
   • Data_Rotavirus
   • Data_Rotavirus_DEL
   • Data_Song_RNASeq_PUBLISHED (*)
   • Data_Xiaobo_10x
   • 'Install Western Digital Software for Mac.dmg'
   • 'Install Western Digital Software for Windows.exe'
   • j_huang_until_201904 (#)
   • sage_jhuang_DEL
   • 'System Volume Information'

6. Elements (Indra HAPDICS)

   • '$RECYCLE.BIN'
   • align_assem_res_DEL
   • Data_Anna11_Pair1-6_P6
   • Data_Anna11_Sepdermidis_DEL
   • Data_Anna12_HAPDICS_HyAsP (#)
   • Data_Anna_HAPDICS_review (#)
   • Data_Anna_HAPDICS_RNASeq_rawdata (#)
   • Data_Gunnar_MS
   • Data_Holger_Klebsiella_pneumoniae_SNP_PUBLISHING (*)
   • Data_Indra0_pioneer (#)
   • Data_Indra10_K9me3S10ph_r2 (#)
   • Data_Indra2_RNASeq (#)
   • Data_Indra3_H3K4me3 (#)
   • Data_Indra3_H3K4me3_incomplete_DEL (#)
   • Data_Indra4_H3K27me3 (#)
   • Data_Indra5_H3K27ac (#)
   • Data_Indra7_H3K4me1 (#)
   • Data_Indra8_H3K4me3 (#)
   • Data_Indra9_K9me3S10ph_r1 (#)
   • Data_Indra_H3K27ac_public (#)
   • Data_Indra_H3K4me3_public (#)
   • Data_Indra_RNASeq_GSM2262901 (#)
   • Data_Indra_TypeI_IFNs_and_TNF (#)
   • Data_Laura1_Indra2_RNASeq (#)
   • Data_Marie_Indra_H3S10 (#)
   • data_overview.txt
   • EXCHANGE_DEL
   • HAPDICS_hyasp_plasmids (#)
   • HD04 (#)
   • HD15_with_10 (#)
   • HD15_without_10 (#)
   • HD17 (#)
   • HD21 (#)
   • HD25 (#)
   • HD26 (#)
   • HD31 (#)
   • HD33 (#)
   • HD39 (#)
   • HD43 (#)
   • HD46 (#)
   • HD59 (#)
   • Linux_DELLWorkstation_C_Users_indbe_VirtualBoxVMs
   • m_aepfelbacher
   • m_aepfelbacher.zip
   • 'System Volume Information'
   • UKE_DELLWorkstation_C_Users_indbe_Desktop

7. Seagate 1

   • '$RECYCLE.BIN'
   • 2017-18_raw_data
   • batch_200314_incomplete
   • batch_200319
   • batch_200325
   • ChromHMM_Dir
   • chromhmm-enhancers
   • Data_Anna12_HAPDICS_final
   • Data_Arck_MeDIP
   • Data_Denise_ChIPSeq_Protocol1
   • Data_Denise_sT_H3K27me3
   • Data_Denise_sT_H3K4me3
   • Data_ENNGS_pathogen_detection_pipeline_comparison
   • Data_Laura0
   • Data_Laura_16S
   • Data_Laura_16S_2
   • Data_Laura_16S_2_re
   • Data_Laura_16S_2_re_
   • Data_Laura_16S_merged
   • Data_Laura_ChIPseq_GSE120945
   • Data_Laura_plasmid
   • Data_Martin_mycoplasma
   • Data_Nicola_Gagliani
   • Data_Nicole16_parapoxvirus
   • Data_Nicole_16S_Christmas_2020
   • Data_Nicole_16S_Christmas_2020_2
   • Data_Petra_Arck
   • Downloads_2021-01-18_DEL
   • Downloads_DEL
   • GAMOLA2_prototyp
   • j_huang_201904_202002
   • j_huang_202007_202012
   • m_aepfelbacher.zip
   • m_error_DEL
   • Project_h_rohde_Susanne_WGS_unbiased_DEL.zip
   • RNA_seq_analysis_tools_2013
   • Seagate
   • Start_Here_Mac.app
   • 'System Volume Information'
   • trimmed

8. Seagate 2

   • '$RECYCLE.BIN'
   • 201030_M03701_0207_000000000-J57B4.zip
   • 91.orf
   • 91.orf.fai
   • 91.pep
   • ALL
   • ALL83
   • Autorun.inf
   • Data_Anna12_HAPDICS_raw_data_shovill_prokka
   • Data_Anna_HAPDICS_RNASeq
   • Data_Anna_HAPDICS_WGS_ALL
   • Data_Christopher_MeDIP_MMc_PUBLISHED (*)
   • Data_Denise_RNASeq
   • Data_Denise_RNASeq_trimmed_DEL
   • Data_Gunnar_Yersiniomics_IMCOMPLETE_DEL
   • Data_HEV
   • Data_HEV_Freiburg_2020
   • Data_Manthey_16S
   • Data_Nicole_16S_Hamburg_Odense_Cornell_Muenster
   • Data_Nicole4_TH17
   • Data_Nicole_HDV_Recombination_PUBLISHED (*)
   • Data_Pietschmann_RSV_Probe_PUBLISHED (*)
   • Data_Susanne_Carotis_RNASeq_PUBLISHING (*)
   • dgaston-dec-06-2012-121211124858-phpapp01.pdf
   • dna2.fasta.fai
   • f1_R1_link.sh
   • f1_R2_link.sh
   • fastq_HPI_bw_2019_08_and_2020_02
   • GSE128169_family.soft.gz
   • GSE128169_series_matrix.txt.gz
   • HD04.infection.hS_vs_HD04.nose.hS_annotated_degenes.xls
   • HD12
   • HyAsP_bold
   • HyAsP_complete_genomes
   • HyAsP_incomplete_genomes
   • HyAsP_normal
   • HyAsP_normal_sampled_input
   • m_aepfelbacher.zip
   • ppat.1009304.s016.tif
   • Qi_panGenome
   • README
   • 'README(1)'
   • rtpd_files
   • rtpd_files_DEL
   • sam2bedgff.pl
   • Seagate
   • 'sequence(1).txt'
   • sequence.txt
   • Seq_VRE_hybridassembly
   • s_hero2x
   • Start_Here_Mac.app
   • Start_Here_Win.exe
   • 'System Volume Information'
   • tileshop.fcgi
   • video.zip
   • Warranty.pdf

9. Seagate 3 (/home/jhuang backup DATA_COPY_FROM_hamburg)

   • Autorun.inf
   • DATA_COPY_DEL
   • DATA_COPY_FROM_hamburg
   • Seagate
   • Start_Here_Mac.app
   • Start_Here_Win.exe
   • Warranty.pdf

10. Seagate 4 (ERROR)

11. Smarty

    • ALIGN_ASSEM
    • Blast_db
    • Data_16S_Degenhardt_Marius_DEL
    • Data_Emilia_MeDIP
    • Data_Gunnar_Yersiniomics_DEL
    • Data_Manja_RNAseq_Organoids_Virus
    • Data_Paul_Staphylococcus_epidermidis
    • Data_Susanne_spatialRNA
    • Data_Ute_RNA_3
    • DjangoApp_Backup_2023-10-30
    • lost+found
    • ref
    • temporary_files_DEL

12. Volume (466G)

    • Data_Indra3_H3K4me3_results_picard
    • Data_Indra4_H3K27me3_results_picard
    • Data_Indra5_H3K27ac_results_picard
    • finding_gap_files_2023
    • HOME_FREIBURG
    • ls: cannot access 'results_H3K27ac': Input/output error

13. DATA_Intenso

    • 150810_M03701_0019_000000000-AFJFK
    • chipseq
    • ChipSeq_Raw_Data3_171009_NB501882_0024_AHNGTYBGX3
    • CLC_Data
    • DATA (empty? if yes, delete it!)
    • Data_Anna1_1585_RNAseq
    • Data_Anna2_CO6114
    • Data_Anna3_VRE_Ausbruch
    • Data_Anna4_SNP
    • Data_Anna5_SNP
    • Data_Anna6_RNASeq
    • Data_Anna7_RNASeq_Cytoscape
    • Data_Anna8_RNASeq_static_shake_deprecated
    • Data_Carolin1_16S
    • Data_Gagliani1_18S_16S
    • Data_Gagliani2_enriched_16S
    • Data_Laura
    • Data_Laura_2
    • Data_Laura_3
    • Data_Nicole10_16S_interlab
    • Data_Nicole1_Tropheryma_whipplei
    • Data_Nicole3_TH17_orig
    • Data_Nicole7_Anelloviruses_Polyomavirus
    • Data_Nicole8_Lamprecht
    • Data_Nicole9_Hund_Katze_Mega
    • Data_Nina1_merged
    • Data_Nina1_Nicole5_1-76
    • Data_SPANDx1_Kpneumoniae_vs_Assembly1
    • Data_Susanne_WGS_3amplicons
    • Data_Thaiss1_Microarray
    • Data_Thaiss2_Microarray
    • Downloads
    • Downloads2
    • Downloads_DEL
    • Fastqs
    • galaxy_tools
    • HOME_FREIBURG_DEL
    • m_aepfelbacher
    • m_aepfelbacher_DEL.zip
    • MauveOutput
    • mom-baby_com_cn
    • PAPERS
    • PENDRIVE_cont
    • results_K27
    • TB
    • 'VirtualBox VMs'
    • VirtualBox_VMs
    • 'VirtualBox VMs2'
    • 'VirtualBox VMs2_DEL'
    • 'VirtualBox VMs_DEL'
    • VirtualBox_VMs_DEL
    • websites
    • Work_Dir2
    • Work_Dir2_SGE
    • Work_Dir_dM_broad_mockinput
    • Work_Dir_dP_broad_mockinput
    • Work_Dir_mock_broad_mockinput
    • Work_Dir_WAC_broad_mockinput
    • Work_Dir_WAP_broad_mockinput

14. DATA_md1 (TODO)

15. DATA (TODO)

16. DATA_A (TODO)

17. DATA_B (TODO)

18. DATA_C (TODO)

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