Index of /~baumlerc

[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[IMG]250605_speciesnumMetaG.3217.png2025-06-05 21:03 221K 
[IMG]250605_speciesnumMetaG.3217.select_50.png2025-06-05 21:03 228K 
[IMG]250605_speciesnumMetaG.3217.select_200.png2025-06-05 21:03 228K 
[IMG]250605_speciesnumMetaG.3217.top50.flipped.png2025-06-05 21:03 1.5M 
[IMG]250605_speciesnumMetaG.3217.top50.png2025-06-05 21:03 248K 
[IMG]250605_speciesnumMetaG.3217.top200.flipped.png2025-06-05 21:03 6.7M 
[IMG]250605_speciesnumMetaG.3217.top200.png2025-06-05 21:03 264K 
[IMG]250612_gather_out.mag.k21.presence.select_50.png2025-06-12 16:01 219K 
[IMG]250612_gather_out.mag.k21.presence.select_200.png2025-06-12 16:01 219K 
[IMG]250612_gather_out.mag.k21.presence.top50.flipped.png2025-06-12 16:01 1.4M 
[IMG]250612_gather_out.mag.k21.presence.top50.png2025-06-12 16:01 209K 
[IMG]250612_gather_out.mag.k21.presence.top200.flipped.png2025-06-12 16:01 6.2M 
[IMG]250612_gather_out.mag.k21.presence.top200.png2025-06-12 16:01 226K 
[IMG]ACVD.png2025-11-26 11:42 154K 
[TXT]ERR10077753.gather.csv2025-04-02 11:28 326K 
[TXT]ERR10077753.prefetch.csv2025-04-02 21:10 39M 
[TXT]SRR7516718_1_trim_fastqc.html2025-01-01 12:50 592K 
[TXT]SRR7516718_2_trim_fastqc.html2025-01-01 12:50 593K 
[IMG]a_gene_boxplot.png2025-07-24 09:37 193K 
[DIR]apriori_plots/2025-12-12 22:02 -  
[IMG]arm-net-adenoma.png2025-05-13 20:50 83K 
[TXT]arm-net-adenoma.txt2025-05-13 20:50 776  
[IMG]arm-net-control.png2025-05-13 20:50 70K 
[TXT]arm-net-control.txt2025-05-13 20:50 631  
[IMG]arm-net-crc.png2025-05-13 20:50 16K 
[TXT]arm-net-crc.txt2025-05-13 20:50 84  
[DIR]benchmark/2023-06-21 15:45 -  
[IMG]blob-kdeplot.png2025-05-26 10:41 32K 
[IMG]blob-per.png2025-05-26 10:41 21K 
[IMG]blob.png2025-05-26 10:41 19K 
[ ]dag.pdf2025-07-22 13:12 11K 
[IMG]dag.svg2025-07-24 15:30 14K 
[IMG]dist-plot-kmer.png2025-05-26 11:19 17K 
[IMG]dist-plot-names.png2025-05-26 11:16 15K 
[IMG]dist-plot.png2025-05-26 11:10 18K 
[IMG]dist-sample-taxa-filtered.png2025-05-27 10:13 202K 
[IMG]dist-sample-taxa.png2025-05-26 22:39 24K 
[IMG]dist-taxa.png2025-05-26 12:53 67K 
[IMG]e-coli-cirles.png2026-02-02 06:28 46K 
[TXT]ecoli-acc.txt2025-03-06 13:29 5.0M 
[IMG]ecoli-novel_kmer.png.png2025-08-31 00:01 19K 
[TXT]ecoli-ranktable.csv2025-04-08 15:13 7.0M 
[TXT]escherichia_coli-acc.txt2025-03-06 12:08 5.0M 
[TXT]escherichia_coli-all.csv2025-03-06 13:27 20M 
[DIR]fastqc_report/2023-12-11 09:27 -  
[IMG]fuso-genomes.1k.accessory.cmp.matrix.png2024-05-14 23:43 301K 
[IMG]fuso-genomes.1k.cmp.dendro.png2024-05-14 23:09 31K 
[IMG]fuso-genomes.1k.cmp.matrix.png2024-05-14 23:10 342K 
[ ]fuso-genomes.1k.core.cmp2024-05-14 23:43 4.5M 
[IMG]fuso-genomes.1k.core.cmp.matrix.png2024-05-14 23:43 360K 
[IMG]fuso_pangenome_circle..png2024-05-14 15:53 32K 
[IMG]fuso_pangenome_circle.png2024-05-14 22:47 41K 
[TXT]graph.html2025-11-26 11:56 3.1M 
[IMG]grid-per.png2025-05-26 10:41 19K 
[IMG]grid.png2025-05-26 10:41 17K 
[TXT]gtdb-rs220.lineages.csv2025-04-02 11:29 81M 
[IMG]gtdb-rs226-k21.species.GCA_023276905_s__Escherichia_coli_E.csv.png2025-08-22 13:49 156K 
[IMG]gtdb-rs226-k21.species.GCA_023276905_s__Escherichia_coli_E.png2025-08-27 10:31 39K 
[IMG]gtdb-rs226-k21.species.GCA_036506255_s__Escherichia_coli_F.csv.png2025-08-22 13:49 136K 
[IMG]gtdb-rs226-k21.species.GCA_036506255_s__Escherichia_coli_F.png2025-08-27 10:31 36K 
[IMG]gtdb-rs226-k21.species.GCA_963607735_s__Escherichia_coli.csv.png2025-08-22 13:49 113K 
[IMG]gtdb-rs226-k21.species.GCA_963607735_s__Escherichia_coli.png2025-08-27 10:31 36K 
[IMG]gtdb-rs226-k31.species.GCA_001065525_s__Ralstonia_insidiosa.png2025-08-22 15:23 39K 
[IMG]gtdb-rs226-k31.species.GCA_001714745_s__Lactobacillus_sp945980025.png2025-08-22 15:07 32K 
[IMG]gtdb-rs226-k31.species.GCA_023276905_s__Escherichia_coli_E.csv.png2025-08-22 13:49 126K 
[IMG]gtdb-rs226-k31.species.GCA_023276905_s__Escherichia_coli_E.png2025-08-27 10:31 34K 
[IMG]gtdb-rs226-k31.species.GCA_034927305_s__Bacteroides_graminisolvens.png2025-08-27 13:21 55K 
[IMG]gtdb-rs226-k31.species.GCA_036298765_s__Bacteroides_F_pectinophilus.png2025-08-27 13:21 40K 
[IMG]gtdb-rs226-k31.species.GCA_036340015_s__Ralstonia_pickettii_D.png2025-08-22 15:23 31K 
[IMG]gtdb-rs226-k31.species.GCA_036732225_s__Ralstonia_sp913056305.png2025-08-22 15:23 34K 
[IMG]gtdb-rs226-k31.species.GCA_039592975_s__Ralstonia_sp039592975.png2025-08-22 15:23 29K 
[IMG]gtdb-rs226-k31.species.GCA_041334275_s__Bacteroides_finegoldii.png2025-08-27 13:21 43K 
[IMG]gtdb-rs226-k31.species.GCA_041335715_s__Bacteroides_caccae.png2025-08-27 13:21 38K 
[IMG]gtdb-rs226-k31.species.GCA_948769445_s__Bacteroides_acidifaciens.png2025-08-27 13:21 46K 
[IMG]gtdb-rs226-k31.species.GCA_959600265_s__Bacteroides_intestinalis_A.png2025-08-27 13:21 55K 
[IMG]gtdb-rs226-k31.species.GCA_959602375_s__Bacteroides_intestinalis.quorum.png2025-08-27 15:59 267K 
[IMG]gtdb-rs226-k31.species.GCA_963546385_s__Bacteroides_D_periocalifornicus.png2025-08-27 13:21 49K 
[IMG]gtdb-rs226-k31.species.GCA_963591485_s__Bacteroides_cellulosilyticus.png2025-08-27 13:21 44K 
[IMG]gtdb-rs226-k31.species.GCA_963599485_s__Bacteroides_fragilis.png2025-08-27 13:21 38K 
[IMG]gtdb-rs226-k31.species.GCA_963631375_s__Bacteroides_uniformis.png2025-08-27 13:21 47K 
[IMG]gtdb-rs226-k31.species.GCA_963631855_s__Bacteroides_xylanisolvens.png2025-08-27 13:21 49K 
[IMG]gtdb-rs226-k31.species.GCA_963647685_s__Bacteroides_stercoris.png2025-08-27 13:21 46K 
[IMG]gtdb-rs226-k31.species.GCA_963651325_s__Bacteroides_thetaiotaomicron.png2025-08-27 13:21 45K 
[IMG]gtdb-rs226-k31.species.GCA_963653295_s__Bacteroides_salyersiae.png2025-08-27 13:21 38K 
[IMG]gtdb-rs226-k31.species.GCA_963929265_s__Bacteroides_pullorum.png2025-08-27 13:21 46K 
[IMG]gtdb-rs226-k31.species.GCA_964240495_s__Bacteroides_congonensis.png2025-08-27 13:21 44K 
[IMG]gtdb-rs226-k31.species.GCF_000801955_s__Ralstonia_sp000801955.png2025-08-22 15:23 34K 
[IMG]gtdb-rs226-k31.species.GCF_002298975_s__Ralstonia_sp002298975.png2025-08-22 15:23 38K 
[IMG]gtdb-rs226-k31.species.GCF_003851545_s__Ralstonia_sp003851545.png2025-08-22 15:23 33K 
[IMG]gtdb-rs226-k31.species.GCF_023955655_s__Ralstonia_soli.png2025-08-22 15:23 32K 
[IMG]gtdb-rs226-k31.species.GCF_031932125_s__Ralstonia_mannitolilytica.png2025-08-22 15:23 32K 
[IMG]gtdb-rs226-k31.species.GCF_034171085_s__Bacteroides_pyogenes.png2025-08-27 13:21 44K 
[IMG]gtdb-rs226-k31.species.GCF_035565195_s__Ralstonia_chuxiongensis.png2025-08-22 15:23 35K 
[IMG]gtdb-rs226-k31.species.GCF_035605275_s__Ralstonia_thomasii.png2025-08-22 15:23 37K 
[IMG]gtdb-rs226-k31.species.GCF_036628375_s__Ralstonia_solanacearum.png2025-08-22 15:23 31K 
[IMG]gtdb-rs226-k31.species.GCF_036628395_s__Ralstonia_nicotianae.png2025-08-22 15:23 34K 
[IMG]gtdb-rs226-k31.species.GCF_036628435_s__Ralstonia_pseudosolanacearum.png2025-08-22 15:23 33K 
[IMG]gtdb-rs226-k31.species.GCF_037023145_s__Ralstonia_sp001078575.png2025-08-22 15:23 36K 
[IMG]gtdb-rs226-k31.species.GCF_038440115_s__Ralstonia_pickettii.png2025-08-22 15:23 41K 
[IMG]gtdb-rs226-k31.species.GCF_039594685_s__Ralstonia_mojiangensis.png2025-08-22 15:23 34K 
[IMG]gtdb-rs226-k31.species.GCF_039595455_s__Ralstonia_wenshanensis.png2025-08-22 15:23 31K 
[IMG]gtdb-rs226-k31.species.GCF_040095535_s__Bacteroides_zhangwenhongii.png2025-08-27 13:21 53K 
[IMG]gtdb-rs226-k31.species.GCF_040688125_s__Ralstonia_sp000620465.png2025-08-22 15:23 33K 
[IMG]gtdb-rs226-k31.species.GCF_040713065_s__Escherichia_coli_F.csv.png2025-08-22 13:49 131K 
[IMG]gtdb-rs226-k31.species.GCF_040713065_s__Escherichia_coli_F.png2025-08-27 10:31 33K 
[IMG]gtdb-rs226-k31.species.GCF_040716695_s__Escherichia_coli.csv.png2025-08-22 13:49 114K 
[IMG]gtdb-rs226-k31.species.GCF_040716695_s__Escherichia_coli.png2025-08-27 10:31 36K 
[IMG]gtdb-rs226-k31.species.GCF_040798045_s__Bacteroides_hominis.png2025-08-27 13:21 42K 
[IMG]gtdb-rs226-k31.species.GCF_040913185_s__Bacteroides_ovatus.png2025-08-27 13:21 45K 
[IMG]gtdb-rs226-k31.species.GCF_040923545_s__Bacteroides_faecis.circles.png2025-08-27 13:42 46K 
[IMG]gtdb-rs226-k31.species.GCF_040923545_s__Bacteroides_faecis.png2025-08-27 13:21 38K 
[IMG]gtdb-rs226-k31.species.GCF_041226505_s__Bacteroides_stercorirosoris.png2025-08-27 13:21 43K 
[IMG]gtdb-rs226-k31.species.GCF_041228115_s__Ralstonia_syzygii.png2025-08-22 15:23 31K 
[IMG]gtdb-rs226-k31.species.GCF_900445575_s__Bacteroides_pyogenes_A.png2025-08-27 13:21 36K 
[IMG]gtdb-rs226-k31.species.GCF_958347695_s__Ralstonia_edaphis.png2025-08-22 15:23 31K 
[IMG]gtdb-rs226-k31.species.GCF_958405655_s__Ralstonia_condita.png2025-08-22 15:23 32K 
[IMG]gtdb-rs226-k31.species.GCF_958405935_s__Ralstonia_psammae.png2025-08-22 15:23 35K 
[IMG]gtdb-rs226-k31.species.GCF_958415225_s__Ralstonia_holmesii.png2025-08-22 15:23 39K 
[IMG]gtdb-rs226-k31.species.GCF_958415495_s__Ralstonia_flaminis.png2025-08-22 15:23 36K 
[IMG]gtdb-rs226-k31.species.GCF_963512445_s__Ralstonia_sp963512445.png2025-08-22 15:23 33K 
[IMG]gtdb-rs226-k31.species.GCF_963928575_s__Bacteroides_massiliensis_E.png2025-08-27 13:21 42K 
[IMG]gtdb-rs226-k31.species.GCF_964240065_s__Bacteroides_eggerthii.png2025-08-27 13:21 39K 
[IMG]gtdb-rs226-k31.species.GCF_964243815_s__Bacteroides_nordii.png2025-08-27 13:21 49K 
[IMG]gtdb-rs226-k51.species.GCA_003435255_s__Bacteroides_ovatus.png2025-08-27 13:21 52K 
[IMG]gtdb-rs226-k51.species.GCA_023276905_s__Escherichia_coli_E.csv.png2025-08-22 13:49 155K 
[IMG]gtdb-rs226-k51.species.GCA_023276905_s__Escherichia_coli_E.png2025-08-27 10:31 38K 
[IMG]gtdb-rs226-k51.species.GCA_034927305_s__Bacteroides_graminisolvens.png2025-08-27 13:21 53K 
[IMG]gtdb-rs226-k51.species.GCA_036298765_s__Bacteroides_F_pectinophilus.png2025-08-27 13:21 45K 
[IMG]gtdb-rs226-k51.species.GCA_037241845_s__Bacteroides_salyersiae.png2025-08-27 13:21 37K 
[IMG]gtdb-rs226-k51.species.GCA_041331935_s__Bacteroides_intestinalis_A.png2025-08-27 13:21 60K 
[IMG]gtdb-rs226-k51.species.GCA_041333895_s__Bacteroides_stercoris.png2025-08-27 13:21 51K 
[IMG]gtdb-rs226-k51.species.GCA_041335715_s__Bacteroides_caccae.png2025-08-27 13:21 38K 
[IMG]gtdb-rs226-k51.species.GCA_963546385_s__Bacteroides_D_periocalifornicus.png2025-08-27 13:21 47K 
[IMG]gtdb-rs226-k51.species.GCA_963596165_s__Bacteroides_eggerthii.png2025-08-27 13:21 44K 
[IMG]gtdb-rs226-k51.species.GCA_963596975_s__Bacteroides_uniformis.png2025-08-27 13:21 49K 
[IMG]gtdb-rs226-k51.species.GCA_963606885_s__Bacteroides_xylanisolvens.png2025-08-27 13:21 52K 
[IMG]gtdb-rs226-k51.species.GCA_963630415_s__Bacteroides_finegoldii.png2025-08-27 13:21 44K 
[IMG]gtdb-rs226-k51.species.GCA_963642985_s__Bacteroides_cellulosilyticus.png2025-08-27 13:21 47K 
[IMG]gtdb-rs226-k51.species.GCA_963652565_s__Bacteroides_fragilis.png2025-08-27 13:21 42K 
[IMG]gtdb-rs226-k51.species.GCA_963929265_s__Bacteroides_pullorum.png2025-08-27 13:21 38K 
[IMG]gtdb-rs226-k51.species.GCA_964241635_s__Bacteroides_hominis.png2025-08-27 13:21 43K 
[IMG]gtdb-rs226-k51.species.GCA_964246455_s__Bacteroides_faecis.png2025-08-27 13:21 36K 
[IMG]gtdb-rs226-k51.species.GCA_964251585_s__Bacteroides_thetaiotaomicron.png2025-08-27 13:21 47K 
[IMG]gtdb-rs226-k51.species.GCF_034654355_s__Bacteroides_nordii.png2025-08-27 13:21 51K 
[IMG]gtdb-rs226-k51.species.GCF_036730745_s__Bacteroides_pyogenes.png2025-08-27 13:21 50K 
[IMG]gtdb-rs226-k51.species.GCF_037414895_s__Escherichia_coli.csv.png2025-08-22 13:49 123K 
[IMG]gtdb-rs226-k51.species.GCF_037414895_s__Escherichia_coli.png2025-08-27 10:31 40K 
[IMG]gtdb-rs226-k51.species.GCF_040095535_s__Bacteroides_zhangwenhongii.png2025-08-27 13:21 52K 
[IMG]gtdb-rs226-k51.species.GCF_040919005_s__Bacteroides_congonensis.png2025-08-27 13:21 46K 
[IMG]gtdb-rs226-k51.species.GCF_041226505_s__Bacteroides_stercorirosoris.png2025-08-27 13:21 43K 
[IMG]gtdb-rs226-k51.species.GCF_900445575_s__Bacteroides_pyogenes_A.png2025-08-27 13:21 37K 
[IMG]gtdb-rs226-k51.species.GCF_949486265_s__Bacteroides_acidifaciens.png2025-08-27 13:21 45K 
[IMG]gtdb-rs226-k51.species.GCF_963877025_s__Escherichia_coli_F.csv.png2025-08-22 13:49 140K 
[IMG]gtdb-rs226-k51.species.GCF_963877025_s__Escherichia_coli_F.png2025-08-27 10:31 38K 
[IMG]gtdb-rs226-k51.species.GCF_963928575_s__Bacteroides_massiliensis_E.png2025-08-27 13:21 40K 
[TXT]jaccard_heatmap.html2025-09-03 13:45 5.3M 
[DIR]multiqc/2025-01-03 14:25 -  
[TXT]multiqc_report.html2023-09-14 08:13 29M 
[DIR]multiqc_report/2023-09-14 14:26 -  
[IMG]my_plot_high_res.png2025-07-17 21:37 106K 
[IMG]network-test.png2025-05-13 14:29 26K 
[IMG]novel_kmer.png.png2025-08-29 15:36 24K 
[IMG]perc_quorum.ecoli.x.fnuc.png2025-08-29 12:00 438K 
[IMG]perc_quorum.escherichia.png2025-08-29 11:50 689K 
[TXT]plant.prefetch.thresh0.matching.hashes.txt2023-08-04 13:06 314  
[DIR]presentation/2026-02-02 08:24 -  
[IMG]ralstonia_solanacearum.species.fixabund.9-1.png2025-08-25 12:15 39K 
[IMG]ralstonia_solanacearum.species.fixabund.normy.20bins.png2025-08-25 14:20 52K 
[IMG]ralstonia_solanacearum.species.fixabund.normy.png2025-08-25 14:09 60K 
[IMG]ralstonia_solanacearum.species.fixabund.png2025-08-25 11:52 41K 
[DIR]raw-db/2023-08-16 22:04 -  
[DIR]readability-plots/2024-11-27 09:59 -  
[TXT]report.0.2.html2024-08-01 21:17 1.2M 
[TXT]report.220.html2024-08-01 15:42 120M 
[TXT]report.20240628-archaea.html2024-07-09 17:03 1.1M 
[TXT]report.20240628-fungi.html2024-07-09 17:13 1.1M 
[TXT]report.20240628-protozoa.html2024-07-09 17:21 1.1M 
[TXT]report.20240628-viral.html2024-07-09 16:59 1.1M 
[TXT]report.20240712-archaea.html2024-07-29 17:05 3.8M 
[TXT]report.20240712-bacteria.html2024-08-07 10:49 6.1M 
[TXT]report.20240712-fungi.html2024-07-29 17:05 5.6M 
[TXT]report.20240712-protozoa.html2024-07-29 17:05 1.6M 
[TXT]report.20240712-viral.html2024-07-29 17:05 38M 
[TXT]report.20240904-archaea.html2024-09-27 10:28 3.6M 
[TXT]report.20240904-bacteria.html2024-09-27 10:28 1.8M 
[TXT]report.20240904-fungi.html2024-09-27 10:28 3.3M 
[TXT]report.20240904-protozoa.html2024-09-27 10:28 1.3M 
[TXT]report.20240904-viral.html2024-09-27 10:28 32M 
[TXT]report.20250806-archaea.html2025-08-07 14:58 4.5M 
[TXT]report.20250806-fungi.html2025-08-07 14:58 3.7M 
[TXT]report.20250806-protozoa.html2025-08-07 14:58 1.4M 
[TXT]report.20250806-viral.html2025-08-07 14:58 42M 
[TXT]report.allthebacteria-r0.2.html2024-09-13 22:57 1.1M 
[TXT]report.create-20240816-viral.html2024-08-17 02:12 32M 
[TXT]report.gtdb-rs220.html2024-09-16 08:31 97M 
[TXT]report.html2024-08-01 15:47 120M 
[IMG]rulegraph.svg2024-09-04 14:43 26K 
[TXT]sankey_diagram.html2024-06-25 12:29 25M 
[TXT]saturation25_100k_stool_T2D.html2025-12-10 09:12 742K 
[TXT]saturation25_100k_stool_healthy_transitive_reduction.html2025-12-10 09:14 220K 
[IMG]total_kmer_ecoli.png2025-09-03 09:29 25K 
[IMG]total_kmer_ecoli5.png2025-09-03 09:29 23K 
[IMG]total_kmer_ecoli100.png2025-09-03 09:29 24K 
[IMG]total_kmer_ecoli1536.png2025-09-11 00:18 60K 
[IMG]total_kmer_ecoli1845.png2025-09-03 09:29 25K 
[IMG]total_kmer_ecoli3432.png2025-09-03 09:29 25K 
[IMG]total_kmer_ecoli3536.png2025-09-03 09:29 26K 
[IMG]total_kmer_ecoli20364.png2025-09-03 09:29 24K 
[IMG]total_kmer_ecoli_50.png2025-09-03 09:29 25K 
[IMG]total_kmer_ecoli_500.png2025-09-03 09:29 24K 
[IMG]total_kmer_ecoli_5000.png2025-09-03 09:29 26K 
[IMG]total_kmer_ecoli_17102.png2025-09-11 16:53 56K 
[IMG]total_kmer_ecoli_19639.png2025-09-11 17:18 57K 
[IMG]total_kmer_ecoli_all.png2025-09-11 16:17 53K 
[IMG]total_kmer_ecolie.png2025-09-03 09:29 26K 
[IMG]total_kmer_jejuni5.png2025-09-03 09:29 22K 
[IMG]total_kmer_jejuni15.png2025-09-03 09:29 24K 
[IMG]total_kmer_jejuni1536.png2025-09-10 21:23 57K 
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