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