Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

Package Usage: conda: r-rmarkdown


31 versions
Latest release: over 1 year ago
61 dependent packages

View more package details: https://packages.ecosyste.ms/registries/anaconda.org/packages/r-rmarkdown

Dependent Repos 172

samwitham/PromoterArchitecture
Arabidopsis thaliana promoter architecture analysis pipeline
  • 2.4 environment.yml

Size: 187 MB - Last synced: 7 months ago - Pushed: 10 months ago

SteMIDIfactory/P-DOR
Quick and easy outbreak reconstruction pipeline
  • 2.13 environment.yml

Size: 37.7 MB - Last synced: 3 months ago - Pushed: 8 months ago

mjaquiery/genetics-snakemake
Snakemake workflow for handling PRS scores and relatedness calculations for human genetic data from ALSPAC.
  • 2.19 workflow/envs/environment.yaml

Size: 1.44 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

paezha/PyERT-BLACK
Capstone project for course 4G06
  • 2.16 environment.yml

Size: 23.2 MB - Last synced: 25 days ago - Pushed: about 1 year ago

ctbautista/MADDOG Fork of KathrynCampbell/MADDOG
Method for Assignment, Definition and Designation of Global lineages
  • environment.yml

Size: 84.7 MB - Last synced: 3 months ago - Pushed: 3 months ago

phbradley/tcr-gwas
Collaboration to find genetic variation associated with TCR repertoire differences
  • 2.8 environment.yml

Size: 176 MB - Last synced: about 1 month ago - Pushed: over 2 years ago

magdalenarussell/mechanistic-trimming
Collaboration to identify sequence-level determinants of nucleotide trimming during V(D)J recombination
  • 2.16 environment.yml

Size: 187 MB - Last synced: 11 days ago - Pushed: 11 days ago

doku/actions_test
  • 1.12 environment.yml

Size: 2.19 MB - Last synced: 10 months ago - Pushed: over 3 years ago

bballew/process.phenotypes
Forked from https://gitlab.com/data-analysis5/phenotypes/process.phenotypes
  • environment.yaml

Size: 4.16 MB - Last synced: over 1 year ago - Pushed: over 1 year ago

lightning-auriga/process.phenotypes
automated phenotype standardization and reporting
  • environment.yaml

Size: 4.29 MB - Last synced: 9 months ago - Pushed: 9 months ago

jacobschwan/conda-rstudio
RStudio Server with conda pacakge management
  • 1.12 environment.yml

Size: 22.5 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago

neavemj/mappd
Metagenomic Analysis Pipeline for Pathogen Discovery
  • 1.12 environment.yaml

Size: 924 KB - Last synced: 8 months ago - Pushed: 8 months ago

russHyde/bfx_201909
Statistical Bioinformatics presentation
  • 1.14.* envs/environment.yml

Size: 327 KB - Last synced: about 1 year ago - Pushed: over 4 years ago

truggles/EIA_Cleaned_Hourly_Electricity_Demand_Code
Code associated with the EIA demand data anomaly screening and imputation project
  • 1.10.* environment.yml

Size: 4.73 MB - Last synced: 10 months ago - Pushed: over 3 years ago

stephenslab/dsc-log-fold-change
dsc to compare approaches to estimating/testing log-fold-change from counts
  • environment.yaml

Size: 19.3 MB - Last synced: 9 months ago - Pushed: about 5 years ago

AmirAlavi/sc-alignment-benchmarking
Supporting data and benchmarking software for our SCIPR paper. (Under Construction)
  • 1.12 data/environment.yml

Size: 45.6 MB - Last synced: 10 months ago - Pushed: almost 4 years ago

IanSudbery/alvarez_et_al
Code and other scripts for Alvarez-Beneyas et al 2020
  • 2.1 environment.yml

Size: 41.2 MB - Last synced: 10 months ago - Pushed: over 2 years ago

victor-moreno/ImputationTutorial
Tutorial on preparing SNP data for imputation using Binder
  • environment.yml

Size: 2.56 MB - Last synced: over 1 year ago - Pushed: about 3 years ago

rpolicastro/barcode-generator
  • 1.14 SINGULARITY/environment.yml

Size: 21.5 KB - Last synced: over 1 year ago - Pushed: almost 5 years ago

mapcloud/phusion-jupyterlab
  • 1.3 environment.yml

Size: 4.88 KB - Last synced: about 1 year ago - Pushed: almost 7 years ago

mpozuelo/QC_demux
Pipeline for getting the quality control of our sequencing and demultiplexing
  • 2.3.* environment.yml

Size: 188 KB - Last synced: 3 months ago - Pushed: about 3 years ago

NBISweden/SMS_4947_20_CVA24v_receptor
  • reports/rmarkdown/environment.yml

Size: 3.6 MB - Last synced: about 1 year ago - Pushed: over 3 years ago

lescailab/binder_biopython
Biopython teaching using binder technologies
  • environment.yml

Size: 9.77 KB - Last synced: about 1 year ago - Pushed: about 3 years ago

micaelamccall/nonverbal-behavior-FA
Habits of Non-verbal Intimacy: reducing number of dimensions using factor analysis
  • 1.12 environment.yml

Size: 17.1 MB - Last synced: 7 months ago - Pushed: over 4 years ago

broadinstitute/cell-painting-batch-effects
  • 1.12.* environment.yml

Size: 9.77 KB - Last synced: 10 months ago - Pushed: over 3 years ago

ecmaggioncalda/cytokine_hands_off_model_selection
Use for choosing final predictive variants for cytokine outcome using phylogeny method significant hits
  • config/environment.yml

Size: 241 KB - Last synced: about 1 year ago - Pushed: about 1 year ago

jchiquet/MAP573
Material for MAP573 - unsupervised learning at l'X
  • binder/environment.yml

Size: 107 MB - Last synced: about 1 year ago - Pushed: over 2 years ago

hatamasaki/2023kandai
  • environment.yml

Size: 1.53 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

maizeumn/grn
Maize Gene regulatory network (MaizeGRN)
  • 2.5.* environment.yml

Size: 24.1 MB - Last synced: about 1 year ago - Pushed: over 3 years ago

NBISweden/SMS_4472_19_Thy_Cancer
This repository consists of codes and information for project SMMS_4472_19
  • reports/rmarkdown/environment.yml

Size: 1.03 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago

vfonov/re_mtl
  • environment.yml

Size: 16.2 MB - Last synced: about 1 year ago - Pushed: about 4 years ago

kouamano/binder_env
  • environment.yml

Size: 0 Bytes - Last synced: about 1 year ago - Pushed: about 3 years ago

joaopalmeiro/r-playground
Some experiments with R.
  • 2.6.* clifford-attractor/environment.yml

Size: 4.08 MB - Last synced: about 1 year ago - Pushed: about 3 years ago

gagneurlab/FRASER-analysis
Accompanying analysis code for the FRASER manuscript
  • environment.yml

Size: 4.67 MB - Last synced: 20 days ago - Pushed: almost 4 years ago

alexetalbott/python_analysis_demo
a brief analysis of dummy delivery data in Python with Folium maps
  • 1.12 environment.yml

Size: 1.22 MB - Last synced: about 1 year ago - Pushed: about 4 years ago

giorgioangel/evc
Official repository of the paper "An Offline Risk-aware Policy Selection Method for Bayesian Markov Decision Processes"
  • 2.13 environment.yml

Size: 58.6 KB - Last synced: 10 months ago - Pushed: almost 2 years ago

NBISweden/excelerate-scRNAseq
Single RNA-seq data analysis with R (Finland, May, 2019)
  • environment.yaml

Size: 342 MB - Last synced: 3 months ago - Pushed: almost 2 years ago

ngs-docs/2023-ggg298-sourmash-compare
A simple example snakemake workflow
  • binder/environment.yml

Size: 45.9 KB - Last synced: 2 months ago - Pushed: about 1 year ago

nasiegel88/2021-geo_datasets-gse149758
Single-cell analysis on control animals from Esaulova et al., 2021 Cell Host Microbe
  • 2.21 environment.yml

Size: 118 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

um-dang/repro-packs
Organizing projects for reproducibility and headache prevention.
  • 2.5.* environment.yml

Size: 594 KB - Last synced: about 1 year ago - Pushed: over 3 years ago

SystemsBiologist/PSCAN
  • 1.15 environment.yml

Size: 14.2 MB - Last synced: about 2 months ago - Pushed: over 4 years ago

jhgille2/rna_seq_pipeline_template
WIP reproducible pipeline for rna seq differential expression analysis
  • 2.20 environment.yml

Size: 77.1 KB - Last synced: about 1 year ago - Pushed: about 1 year ago

SouthGreenPlatform/training_reproducible_research
Training on Tools for Reproducible Research given by SouthGreen
  • 2.13.* tutorials/containers/environment.yml
  • 2.13.* tutorials/git/environment.yml
  • 2.7.* tutorials/rmarkdown/environment.yml

Size: 57.8 MB - Last synced: about 2 months ago - Pushed: 12 months ago

zia-foisal/reproducible_drought_index
A repository to practice reproducible research practices while studing the state of the drought around the world
  • 2.16 environment.yaml

Size: 10.7 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

tmbuza/imap-sample-metadata-og
Downloading metadata from SRA database, exploration and profiling
  • 2.20.* workflow/envs/environment.yml

Size: 83.1 MB - Last synced: 2 months ago - Pushed: about 1 year ago

achmand/datascience-brexit
Case-study set out to statistically test whether any Brexit major event has an impact on various financial markets
  • 1.10 src/environment.yml

Size: 13.8 MB - Last synced: about 1 year ago - Pushed: almost 5 years ago

ecmaggioncalda/cytokine_full_set_comp
  • config/environment.yml

Size: 229 KB - Last synced: about 1 year ago - Pushed: about 1 year ago

ecmaggioncalda/cytokine_biological_model_selection
  • config/environment.yml

Size: 229 KB - Last synced: about 1 year ago - Pushed: about 1 year ago

ecmaggioncalda/snakemake-cytokine-analysis
  • config/environment.yml

Size: 924 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

ecmaggioncalda/severity_core_sift
  • config/environment.yml

Size: 288 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

ecmaggioncalda/snakemake-continuous-analysis 📦
  • config/environment.yml

Size: 290 KB - Last synced: about 1 year ago - Pushed: about 2 years ago

ecmaggioncalda/mikropml
  • config/environment.yml

Size: 479 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago

Cibiv/ipoolseq-pipeline
A pipeline for the analysis of iPool-Seq data
  • >=1.12 environment.yaml

Size: 9.71 MB - Last synced: 2 months ago - Pushed: over 2 years ago

qbicsoftware/r-container-lib
A collection of project-related Dockerfiles for a controlled R environment with defined R packages
  • 1.8 projects/QTEST/environment.yml

Size: 150 KB - Last synced: 16 days ago - Pushed: about 3 years ago

GallupGovt/ngs2
DARPA Next Generation Social Science (NGS2)
  • 1.12 cycle3/Boomtown/Analysis/environment.yaml
  • 1.12 cycle4/Boomtown/Analysis/environment.yaml

Size: 32.8 MB - Last synced: 9 months ago - Pushed: about 1 year ago

jessieno/git_tutorial
  • 2.1.* environment.yml

Size: 5.86 KB - Last synced: 10 months ago - Pushed: over 3 years ago

arslee/learnr
  • Monte Carlo/environment.yml

Size: 43 KB - Last synced: about 1 year ago - Pushed: over 2 years ago

cyverse-vice/jupyterlab-rnaseq
  • 2.1.* environment.yml

Size: 8.79 KB - Last synced: about 1 year ago - Pushed: about 4 years ago

cyverse-vice/snakemake-vice
VICE jupyter lab with snakemake-minimal
  • 2.1.* environment.yml

Size: 12.7 KB - Last synced: about 1 year ago - Pushed: about 4 years ago

PetterRanefall/git_tutorial
  • 2.1.* environment.yml

Size: 10.7 KB - Last synced: 10 months ago - Pushed: over 3 years ago

crlero/snakemake-tutorial
  • 2.14.* handson/workflow/environment.yaml

Size: 3.39 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

grst/single_cell_data_integration
  • 1.10.* snakemake/wrappers/render_rmarkdown/environment.yml

Size: 13.7 MB - Last synced: 2 months ago - Pushed: about 5 years ago

Jacobog02/Maslenlab_Thesis
Thesis code repository for analysis of Illumina Bisulfite Sequencing data.
  • 2.1.* env/environment.yml

Size: 2.25 MB - Last synced: about 1 year ago - Pushed: over 3 years ago

thomasdenecker/demoFormation
  • environment.yml

Size: 675 KB - Last synced: 12 months ago - Pushed: 12 months ago

ElMarcy/git_tutorial_2
  • 2.13.* environment.yml

Size: 7.81 KB - Last synced: 12 months ago - Pushed: 12 months ago

jimmyliu1326/InfluenzaNanopore
Influenza A Full-Length Consensus Calling for Nanopore Sequencing Data
  • environment.yml

Size: 3.66 MB - Last synced: 5 months ago - Pushed: 5 months ago

kelly-sovacool/advent-of-code
My solutions to the Advent of Code puzzles.
  • 2.11 environment.yml

Size: 132 KB - Last synced: 27 days ago - Pushed: over 1 year ago

angelovangel/nxf-fastqc
A simple fastp-MultiQC nextflow pipeline
  • 2.3.* environment.yml

Size: 36.5 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

angelovangel/nxf-ont
A nextflow pipeline for processing raw Nanopore data
  • 2.3.* environment.yml

Size: 97.7 KB - Last synced: about 1 year ago - Pushed: over 3 years ago

Dayueban/ampliseq Fork of nf-core/ampliseq
16S rRNA amplicon sequencing analysis workflow using QIIME2
  • 1.10.* environment.yml

Size: 229 KB - Last synced: 11 months ago - Pushed: about 5 years ago

GenomicsNX/excelerate-scRNAseq Fork of NBISweden/excelerate-scRNAseq
Single RNA-seq data analysis with R (Finland, May, 2019)
  • environment.yaml

Size: 342 MB - Last synced: about 2 months ago - Pushed: about 4 years ago

pmoizerv/git_tutorial
  • 2.1.* environment.yml

Size: 7.81 KB - Last synced: 12 months ago - Pushed: about 3 years ago

TeamPerie/Report_Daphne Fork of dvginneken/Reproduce_Thesis_InstitutCurie
  • 2.20 environment.yml

Size: 32.6 MB - Last synced: 11 months ago - Pushed: 11 months ago

davidecarlson/Snakemake_diff_gene_expr
Differential Gene Expression with Snakemake
  • 2.5 environment.yml

Size: 37.1 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago

saunders-lab/growth_curve_fittr
Easy growth curve curve fitting for experimental biologists
  • environment.yml

Size: 5.72 MB - Last synced: 11 months ago - Pushed: about 2 years ago

zxky-sys/meripseqpipe Fork of lazyky/meripseqpipe
MeRIP-seq analysis pipeline arranged multiple alignment tools, peakCalling tools, Merge Peaks' methods and methylation analysis methods.
  • 1.10.* environment.yml

Size: 56.3 MB - Last synced: 10 months ago - Pushed: almost 4 years ago

lqsae/haplotyped-methylome Fork of scottgigante/haplotyped-methylome
Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  • environment.yml

Size: 4.96 MB - Last synced: about 1 month ago - Pushed: about 5 years ago

yarikoptic/example-notebooks-1 Fork of dandi/example-notebooks
  • 2.20 000039/AllenInstitute/environment.yml

Size: 16.1 MB - Last synced: 10 months ago - Pushed: 10 months ago

kylestanley1313/ffa-p1
A repository for code related to the first iteration of functional factor analysis (FFA).
  • 2.20.* environment.yml

Size: 1.17 MB - Last synced: about 1 month ago - Pushed: 7 months ago

ministryofjustice/occupeye-shiny-app
• This repository is defined and managed in Terraform
  • 1.11 environment.yml

Size: 488 KB - Last synced: about 2 months ago - Pushed: 6 months ago

bionetslab/ALS_MELC_Data_Analysis
  • 1.12 environment.yml

Size: 256 MB - Last synced: 6 months ago - Pushed: 6 months ago

PGScatalog/pgsc_calc
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
  • environments/report/environment.yml

Size: 9.22 MB - Last synced: 7 days ago - Pushed: 7 days ago

robert-altwasser/umi-processing
  • 2.14 env/environment.yml

Size: 340 KB - Last synced: 6 months ago - Pushed: 6 months ago

bioc/chimeraviz
This is a read-only mirror of the git repos at https://bioconductor.org
  • environment.yml

Size: 2.81 MB - Last synced: 28 days ago - Pushed: 28 days ago

NBISweden/workshop-reproducible-research
NBIS/ELIXIR course: Tools for Reproducible Research
  • tutorials/containers/environment.yml

Size: 84.6 MB - Last synced: 3 months ago - Pushed: 6 months ago

UBC-MDS/What-Effects-One-Chance-of-Survival-on-the-Titanic-A-Logistic-Regression-Analysis
  • environment.yaml

Size: 3.5 MB - Last synced: 6 months ago - Pushed: 6 months ago

Kirk3gaard/2023-basecalling-benchmarks
  • 2.14.* environment.yml

Size: 19.6 MB - Last synced: 5 months ago - Pushed: 5 months ago

Mye-InfoBank/SIMBA
A nextflow pipeline for processing sc-RNASeq data, performing QC and integration and preparing the results for further investigation using cellxgene.
  • 2.25 docker/rpy/environment.yml

Size: 981 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

nathan-adeyemi/Inpatient-Bed-Allocation-Optimization
  • 2.25.* environment.yaml

Size: 8.22 MB - Last synced: 4 months ago - Pushed: 4 months ago

Kenneth-Mitchell/HMC-Thesis
  • 2.25 environment.yml

Size: 8.85 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

riffomonas/drought_index
A project to practice reproducible research practices while studying the state of drought around the world
  • 2.17.* environment.yml

Size: 328 MB - Last synced: 6 days ago - Pushed: 6 days ago

CCBR/CHAMPAGNE
CHromAtin iMmuno PrecipitAtion sequencinG aNalysis pipEline
  • 2.9.* modules/nf-core/rmarkdownnotebook/environment.yml

Size: 15.5 MB - Last synced: 27 days ago - Pushed: about 1 month ago

percyfal/nbis-project-admin
NBIS project administration utilities
  • environment.yml

Size: 224 KB - Last synced: 3 months ago - Pushed: 3 months ago

WenfeiY/P.patens_geno_design
Python and R script for Physcomitrium patens genome design
  • 2.25 environment.yml

Size: 865 KB - Last synced: 2 months ago - Pushed: 2 months ago

nf-core/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
  • 2.25.* modules/nf-core/quartonotebook/environment.yml
  • 2.9.* modules/nf-core/rmarkdownnotebook/environment.yml

Size: 146 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

fpechon/UCLouvain-LACTU2110
Modélisation prédictive et apprentissage statistique en assurance
  • environment.yml

Size: 27.7 MB - Last synced: about 1 month ago - Pushed: about 1 month ago