361Division
361 Division - Scientific Training, Education and Learning
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- bbhub2015_pirbright.pdf
- BBTH Nov 2015_talk.pptx
- BBTHub_meeting_ 20151104_soranzo.pdf
- BBTHWorkshopGroupActivityGroup1.docx
- BBTHWorkshopGroupActivitygroup2.docx
- BBTHWorkshopGroupActivitygroup3.docx
- BBTHWorkshopGroupActivitygroup4.docx
- EmilyA_361Intro_TrainingUpdate_Nov2015.pptx
- MarkFBBTH Nov 2015_talk.pptx
- README.md
- Rothamsted.pptx
- ._BfB1_devega_workingremote.pptx
- ._BfB2_Rstudio.pptx
- ._BfB3_devega_mapping.pptx
- ._BfB_2ndDay_1_SNPcalling.pptx
- ._BfB_2ndDay_2_SNPmorefiltering.pptx
- ._BfB_2ndDay_4_PCArelateness.pptx
- ._.DS_Store
- ._LICENSE
- ._plink
- ._prettify
- ._toy.map
- ._toy.ped
- ._Tutorial_Matrix.bed
- ._Tutorial_Matrix.bim
- ._Tutorial_Matrix.fam
- ._Tutorial_Matrix.map
- ._Tutorial_Matrix.ped
- ._.DS_Store
- ._Tutorials for the R-Bioconductor Package SNPRelate.pdf
- ._.DS_Store
- ._ConvertVCFToGFF.class
- ._reference_H35_varCallingPractical.fasta
- ._reference_H35_varCallingPractical.fasta.fai
- ._variant discovery practical.pdf
- ._variantCallingPractical_barley_iSelect.bam
- ._variantCallingPractical_barley_iSelect.bam.bai
- ._.DS_Store
- ._devega_plink_linux_x86_64
- BfB1_devega_workingremote.pptx
- BfB2_Rstudio.pptx
- BfB3_devega_mapping.pptx
- BfB_2ndDay_1_SNPcalling.pptx
- BfB_2ndDay_2_SNPmorefiltering.pptx
- BfB_2ndDay_4_PCArelateness.pptx
- SRR360147_1.rar
- SRR360147_2.rar
- Athaliana_chr2.fa
- Athaliana_chr2_genes.gff
- .DS_Store
- .DS_Store
- accepted_hits.bam
- accepted_hits.sorted.bam
- accepted_hits.sorted.bam.bai
- align_summary.txt
- deletions.bed
- insertions.bed
- junctions.bed
- prep_reads.info
- unmapped.bam
- .DS_Store
- LICENSE
- plink
- plink.frq
- plink.het
- plink.hwe
- plink.log
- plink.nosex
- prettify
- SNPs_defaults.log
- SNPs_defaults.map
- SNPs_defaults.ped
- SNPs_defaults.vcf
- toy.map
- toy.ped
- Tutorial_Matrix.bed
- Tutorial_Matrix.bim
- Tutorial_Matrix.fam
- Tutorial_Matrix.map
- Tutorial_Matrix.rar
- files-pane.pper
- packages-pane.pper
- source-pane.pper
- windowlayoutstate.pper
- workbench-pane.pper
- 387F98C7
- 74963347
- B73BDFA2
- INDEX
- 15D5C6C7.Rdata
- rmd-outputs
- saved_source_markers
- session-persistent-state
- paths
- .RData
- .Rhistory
- new_project_snprelate.Rproj
- test.gds
- Untitled.R
- .DS_Store
- Tutorials for the R-Bioconductor Package SNPRelate.pdf
- out.log
- out.map
- out.ped
- playingmore.log
- playingmore.recode.vcf
- SNPs_defaults.annotated.vcf
- SNPs_defaults.vcf
- SNPs_prefiltered.annotated.vcf
- SNPs_prefiltered.vcf
- vcftools_out.diff.sites_in_files
- vcftools_out.log
- vcftools_out.map
- vcftools_out.ped
- .DS_Store
- ConvertVCFToGFF.class
- reference_H35_varCallingPractical.fasta
- reference_H35_varCallingPractical.fasta.fai
- variant discovery practical.pdf
- variantCallingPractical_barley_iSelect.bam
- variantCallingPractical_barley_iSelect.bam.bai
- .DS_Store
- Answer_3.2.xls
- Answer_3.3.xls
- Answer_3.4.xls
- Bioinformatics for breeding.pptx
- F2_recombination_exercise.xlsx
- R_script_for_linear_reg_model.R
- Three_locus_map_Exercise.xlsx
- GAPIT_text.r
- RC_pheno2.txt
- s7_data2.txt
- s7_data2_map.txt
- structure.txt
- WSC.loc
- WSC.map
- WSC.qua
- R_script_for_onemap.R
- redclover.csv
- redclover.txt
- R_script_for_WSC2_map (1).R
- R_script_for_WSC2_map.R
- rqtl2.r.txt
- sim_pheno.txt
- WSC3.csv
- rrBLUP_GWAS.R
- covariates.txt
- devega_snpEff.zip
- freebayes
- freebayes.zip
- GS_Tutorial.R
- JohnHickeySimpleLinearModels.xlsx
- Biomarker Discovery Dr Animesh Acharjee.pdf
- Biomarker_Discovery_with_RF.docx
- data.txt
- R code.txt
- 26012017_ML.pdf
- Eddy_ett03.pdf
- ei_gut_health17_questions.pdf
- ei_gut_health17_slides.pdf
- Kostic_chm15.pdf
- Maree_ii06.pdf
- Maree_jtb05.pdf
- Maree_pta06.pdf
- Sanz_pr15.pdf
- Wen_n08.pdf
- Description-Samples-from-paper.xlsx
- gene-annotation.txt
- gene-expression-numeric.txt
- gene-expression-table.txt
- groups.txt
- samples.txt
- sdata201568.pdf
- .Rhistory
- 2017-01-26_nutrigenomics_PCA-for-two-genes.R
- 2017-01-26_nutrigenomics_PCA-using-example-data.R
- compile-Network-usingStringDB.R
- expressionData.txt
- groups.txt
- interactionMatrix.txt
- MultiPEN-Rankings_lambda0.0001-onlyGenes.txt
- sampleClass.txt
- enrichment-GO.txt
- enrichment-GO_BP.pdf
- enrichment-GO_CC.pdf
- enrichment-GO_MF.pdf
- MultiPEN-feature-selection_config.txt
- MultiPEN-performance_feature-selection_lambda0.0001.txt
- MultiPEN-Rankings_lambda0.0001.mat
- MultiPEN-Rankings_lambda0.0001.txt
- MultiPEN-Rankings_lambda0.0001_higher-in-cases.txt
- MultiPEN-Rankings_lambda0.0001_higher-in-control.txt
- MultiPEN-vts_lambda0.0001.txt
- example_cross_validation.sh
- example_enrichment_GO.sh
- example_feature_selection.sh
- example_hierarchical_clustering.sh
- example_pca.sh
- MultiPEN
- run_MultiPEN.sh
- PathwaysAndNetworksDataIntegration-handout.pdf
- PathwaysAndNetworksInDataIntegration.pptx
- NRP course Muller Jan2017V2.pptx
- NRP course Muller Jan2017V2.rar
- 2017-02-02_material-from-NetworkDrivenIntegration.zip
- 26012017_ML.pdf
- Biomarker Discovery Dr Animesh Acharjee.pdf
- Biomarker_Discovery_with_RF.docx
- data.txt
- EIGut.zip
- NRP course Muller Jan2017V2.pptx
- NRP course Muller Jan2017V2.rar
- R code.txt
- 151125_netanalysis_ppm.pptx
- 151125_netanalysis_ppm_01-introduction.pptx
- 151125_netanalysis_ppm_02-protein-protein_interactions_and_PPI_databases.pptx
- 151125_netanalysis_ppm_03-the_IntAct_database.pptx
- 151125_netanalysis_ppm_04-data_integration_and_PSICQUIC.pptx
- 151125_netanalysis_ppm_05-PSICQUIC_game.pptx
- 151125_netanalysis_ppm_06-network_representation_analysis_strategies_limitations.pptx
- 151125_netanalysis_ppm_07-introduction_to_Cytoscape.pptx
- 151125_netanalysis_ppm_08-building_networks_with_Cytoscape_PSICQUIC.pptx
- 151125_netanalysis_ppm_09-analysing_networks_with_Cytoscape_PSICQUIC.pptx
- 00 - Welcome.pdf
- 01 - Why are we here.pdf
- 02 - Sequencing Technologies.pdf
- 03 - A simple genome assembly.pdf
- 04 - Genome assembly and validation.pdf
- 05 - Data QC and preparation.pdf
- 06 - First pass assembly and QC.pdf
- 00 - Welcome.pdf
- 01 - Why are we here.pdf
- 02 - Sequencing Technologies.pdf
- 03 - A simple genome assembly.pdf
- 04 - Genome assembly and validation.pdf
- 05 - Data QC and preparation.pdf
- 06 - First pass assembly and QC.pdf
- 07 - Scaffolding, improvement and gap closing.pdf
- README.md
- README.md
- Cleaning Introduction.pdf
- De novo Introduction.pdf
- Phylogeography Introduction.pdf
- README.md
- Reference Introduction.pdf
- Stacks_01_Intro_tutorial.pdf
- Stacks_Params_TalksPDF.pdf
- tgac_2016_IntroUnixPart1.pdf
- tgac_2016_John_Davey_rad_variations.key
- tgac_2016_John_Davey_rad_variations.pdf
- TGAC_PopVarTalk_Carrollv2PDF.pdf
- clean.sh
- clean_lane1_barcodes
- clean_lane2_barcodes
- denovo.sh
- denovo_popmap
- scan.sh
- scan_popmap
- tgac_2015_IntroUnixPart1.pdf
- tgac_2015_RAD_tutorial.pdf
- Commands Sheet.docx
- Introduction to Linux Slides.pptx
- Introduction to Linux.docx
- Linux Command Line Exercises.docx
- ._128-TIMI922.pdf
- ._132-2013 PLoS One Metabolomics of S. ruber isolates.pdf
- ._133-TOYOI.pdf
- ._141-ARBOL_VIDA_ENGLISH.pdf
- ._143-Leo_Stellungnahme_Taxonomie_EN_b.pdf
- ._145-NATURE_ANALYSIS.pdf
- ._148-Kostas_candidatus.pdf
- ._149-MALDI_TOMEU.pdf
- ._150-SPECIES_RUDI.pdf
- ._151-KYRIPIDES.pdf
- ._152-CROHN_SAM.pdf
- ._153-SARA_GRUMERS.pdf
- ._154-MERIT_PLANTAS.pdf
- ._155-ASTROBIOLOGY_SPECIES.pdf
- ._156-ASTROBIOLOGY_TAXONOMY.pdf
- ._157-ASTROBIOLOGY_PROKARYOTE.pdf
- ._158-ENCYCLOPEDIA_METAGENOMICS.pdf
- ._33-FEMSrev.pdf
- ._90-ANI_PNAS.pdf
- 128-TIMI922.pdf
- 132-2013 PLoS One Metabolomics of S. ruber isolates.pdf
- 133-TOYOI.pdf
- 141-ARBOL_VIDA_ENGLISH.pdf
- 143-Leo_Stellungnahme_Taxonomie_EN_b.pdf
- 145-NATURE_ANALYSIS.pdf
- 148-Kostas_candidatus.pdf
- 149-MALDI_TOMEU.pdf
- 150-SPECIES_RUDI.pdf
- 151-KYRIPIDES.pdf
- 152-CROHN_SAM.pdf
- 153-SARA_GRUMERS.pdf
- 154-MERIT_PLANTAS.pdf
- 155-ASTROBIOLOGY_SPECIES.pdf
- 156-ASTROBIOLOGY_TAXONOMY.pdf
- 157-ASTROBIOLOGY_PROKARYOTE.pdf
- 158-ENCYCLOPEDIA_METAGENOMICS.pdf
- 33-FEMSrev.pdf
- 90-ANI_PNAS.pdf
- 1-16S TAXONOMIC THRESHOLDS.pdf
- 2- PRIMER AND SIZE & TREE RECONSTRUCTION.pdf
- 3_DIVERSITY_MATTERS.pdf
- alston_TGAC-metagenomics-from-bench-to-data-analysis_FINAL.pptx
- DAuria_Metagenomics.pdf
- DAuriaPractice.pdf
- INCA_demo.pdf
- Introduction to Linux.docx
- Metagenomics v4.pdf
- Metagenomics-overview_Megan5_SM2015_given_slides.zip
- TGAC_course_EduardoGlezPastor_2015.ppt
- TGAC_metagenomics_151015_publicdataresources_JP.pdf
- Vlahovicek_Metagenomes_TGAC2015.pdf
- 16S experimental design.pptx
- alston_dataAnalysis-and-tools_EI-MGs_2016_final.pptx
- EMG_tax_func.pdf
- How Quantitive are 16S surveys.pptx
- Metagenomics-overview_Megan6_SM2016_given.pdf
- Metagenomics2016_SeqTechOverview_circulation.pptx
- Metagenomics_2016_KM_circulation.pptx
- Metagenomics_SampleQC_LibCons_2016_circulation.pptx
- metatranscriptomics.pptx
- mitchell_earlham2.pdf
- README.md
- miRNA_course_miRNA_biogenesis.pptx
- miRNA_course_miRNA_targets_PARE_plants.pptx
- miRNA_workshop_TB.ppt
- Target_prediction - extra info.pptx
- TGAC_WorkshopTalk.pdf
- Stacks_01_Intro_tutorial.pdf
- Stacks_Params_TalksPDF.pdf
- tgac_2016_IntroUnixPart1.pdf
- tgac_2016_John_Davey_rad_variations.key
- tgac_2016_John_Davey_rad_variations.pdf
- TGAC_PopVarTalk_Carrollv2PDF.pdf
- 26nov_pathway_resources.pdf
- course_materials
- denes_turei_tgac_signalling_course_27012016.pdf
- readme.md
- Dataset S1.xml
- readme.md
- TGAC 20160127-1.pdf
- TGAC 20160127-2.pdf
- CytocopterManual.pdf
- NorwichCourse28Jan16-CellNOpt.pdf
- readme.md
- readme.md
- TGAC_CALZONE 2.zip
- 151103_identifiers.pptx
- 160126_netanalysis_ppm.pptx
- BiolNetworksAnalysis_tutorial.pdf
- pone.0084974.pdf
- readme.md
- readme.md
- RTK_pathway.xlsx
- signalling-networks-2016-_TKorcsmaros.pptx
- Coach Transport.pdf
- readme.md
- README.md
- CommandLine_Tutorial.pptx
- Commands Sheet.docx
- Introduction to Linux Slides.pptx
- Links to EBI materials.txt
- Paddy_slides.zip
- ._Wheat_as_model_TILLING_2016_Uauy_Krasileva_share.pdf
- ._Wheat_as_model_TILLING_2016_Uauy_Krasileva_share.pptx
- Earlham December Workshop_share.pptx
- Haplotype_Uauy_share.pptx
- LoLa workshop_Uauy_wheat-expression_share.pptx
- Wheat_as_model_TILLING_2016_Uauy_Krasileva_share.pdf
- Wheat_as_model_TILLING_2016_Uauy_Krasileva_share.pptx
- Wheat_workshop-gene-annotation_share.pptx
- README.md
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