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

rjof/coronavirus_dashboard_mexico
Fork of https://github.com/RamiKrispin/coronavirus_dashboard with minimal tweaks for Mexico
  • 1.12 environment.yml

Size: 12.8 MB - Last synced: 5 months ago - Pushed: over 1 year ago

rjof/rjof.github.io
Personal projects
  • 1.12 docs/environment.yml
  • 1.12 environment.yml

Size: 38.5 MB - Last synced: 5 months ago - Pushed: over 1 year ago

FORCOLAB-UofT/INFOX
This is a prototype for overview of GitHub forks.
  • 1.8 environment.yaml

Size: 14.3 MB - Last synced: about 2 months ago - Pushed: 3 months ago

fabiankal/woco
Work and Corona (WoCo) dashboard for plotting data from the Austrian Panel Project (ACPP) and the WoCo project.
  • environment.yml

Size: 5.64 MB - Last synced: 9 months ago - Pushed: 9 months ago

brucemoran/tumour_only
Tumour-only DNA sequencing analysis
  • 2.8 environment.yaml

Size: 58.6 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

johsr/gwas-regenie Fork of genepi/nf-gwas
A nextflow pipeline to perform whole genome regression modelling using regenie.
  • 2.16.* environment.yml

Size: 43.4 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

tpall/geo-htseq-paper
Code used to generate summaries, models and figures for article "A field-wide assessment of differential high throughput sequencing reveals widespread bias".
  • >=2.5 workflow/envs/environment.yml

Size: 62.3 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

kalenkovich/reproducible-MEEG
Code that attempts to reproduce "A Reproducible MEG/EEG Group Study With the MNE Software" by Jas et al., 2018
  • 2.10.* environment.yml

Size: 1.58 MB - Last synced: about 1 year ago - Pushed: over 2 years ago

qbic-pipelines/rnadeseq
Differential gene expression analysis and pathway analysis of RNAseq data
  • 2.11.* environment.yml

Size: 62.4 MB - Last synced: about 23 hours ago - Pushed: 1 day ago

mskcc/helix_filters_01
Workflows for post-pipeline data processing and file generation
  • 2.10.* containers/reporting/environment.yml

Size: 4.51 MB - Last synced: 2 days ago - Pushed: about 1 year ago

bahlolab/PLASTER
Nextflow pipeline for long amplicon typing of PacBio SMRT sequencing data
  • inst/environment.yml

Size: 42.2 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

jseeman/publication-supplements
Code and data for research replication and reuse
  • 1.12 2022_arsia/environment.yaml

Size: 511 KB - Last synced: about 1 year ago - Pushed: about 2 years ago

broadinstitute/lincs-cell-painting
Processed Cell Painting Data for the LINCS Drug Repurposing Project
  • 1.12.* environment.yml

Size: 108 MB - Last synced: 7 months ago - Pushed: almost 2 years ago

villegar/DoGE
Differential Gene Expression Analysis Pipeline
  • 1.12.* environment.yml

Size: 16 MB - Last synced: 10 months ago - Pushed: almost 3 years ago

hivlab/virome-wrappers
snakemake wrappers
  • 1.10.* prepare_taxonomy_data/environment.yaml

Size: 30.5 MB - Last synced: about 1 year ago - Pushed: about 2 years ago

russHyde/russ-hyde
Public content for my blog
  • 1.13.* envs/environment.yaml

Size: 5.17 MB - Last synced: about 1 year ago - Pushed: about 3 years ago

sateeshperi/reproduce_me
  • 2.1.* environment.yml

Size: 8.79 KB - Last synced: about 1 year ago - Pushed: about 3 years ago

ikfj/ma-keiryo
  • environment.yml

Size: 23.4 KB - Last synced: about 1 month ago - Pushed: about 1 month ago

oceanhackweek/jupyter-image
jupyter-image
  • r/environment.yml

Size: 728 KB - Last synced: 28 days ago - Pushed: 9 months ago

lifebit-ai/gel-gwas-nf
  • environment.yml

Size: 3.49 MB - Last synced: 25 days ago - Pushed: over 2 years ago

nibscbioinformatics/viralevo
  • 1.12.* containers/viralevo-reporting/environment.yml
  • 1.12.* environment.yml

Size: 308 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

nibscbioinformatics/scranger
scRNAseq Pipeline running Cell Ranger and Seurat
  • 1.12.* environment.yml

Size: 237 KB - Last synced: 7 months ago - Pushed: over 3 years ago

TheJacksonLaboratory/sbas
CloudOS Digital Research Environment
  • 2.1.* environment.yml

Size: 159 MB - Last synced: about 2 months ago - Pushed: over 2 years ago

Kange2014/ion-meta
A workflow using snakemake to analyze ion torrent based metagenomics data
  • envs/environment.yaml

Size: 16.7 MB - Last synced: about 1 year ago - Pushed: over 3 years ago

nibscbioinformatics/nanoprofiler
Profiling Nanobodies sequencing libraries
  • 1.12.* software/local/report/environment.yml

Size: 2.43 MB - Last synced: about 1 year ago - Pushed: over 3 years ago

stianlagstad/chimeraviz
chimeraviz is an R package that automates the creation of chimeric RNA visualizations.
  • environment.yml

Size: 2.9 MB - Last synced: 27 days ago - Pushed: 6 months ago

InfantLab/little-drummers
  • 1.12 analysis/environment.yml

Size: 1.04 GB - Last synced: about 1 year ago - Pushed: almost 2 years ago

eQTLGen/DataQC
eQTL data QC pipeline for eQTLGen phase II project.
  • 2.10.* environment.yml

Size: 13.2 MB - Last synced: 3 months ago - Pushed: 3 months ago

vaqm2/custom_gwas
Python Code using CyVCF2 to run custom GWAS models on imputed VCF files
  • 2.14.* environment.yml

Size: 958 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

ngs-docs/remote-computing-base
An Introduction to Remote Computing - base materials.
  • 2.6 environment.yml

Size: 9.73 MB - Last synced: about 2 months ago - Pushed: over 2 years ago

ngs-docs/2021-august-remote-computing
Remote computing workshops in August 2021
  • 2.6 environment.yml

Size: 9.81 MB - Last synced: about 2 months ago - Pushed: over 2 years ago

BioinfoNet/TeachingJupyterNotebooks
Training materials for the Open Science Workshop held in Nariobi
  • 1.8 environment.yml

Size: 16 MB - Last synced: about 1 year ago - Pushed: over 5 years ago

Juassis/SMS-6198-22-ITS
Bjuren Island Fungi
  • reports/rmarkdown/environment.yml

Size: 73.7 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

JaehyunSong/binder-kobe
  • environment.yml

Size: 23.4 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

moj-analytical-services/DefCalc
The deflator calculator.
  • 2.1 environment.yml

Size: 4.83 MB - Last synced: 10 months ago - Pushed: 10 months ago

IdoBar/CNVpytor_binder
Binder repo to analyse CNVpytor results
  • .binder/environment.yml

Size: 151 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

Wiselab2/NGPINT
  • 0.8.1 environment.yml

Size: 300 MB - Last synced: 7 months ago - Pushed: over 2 years ago

ecmaggioncalda/2022_07_05_Kleb_GWAS_SR
CHG project
  • config/environment.yml

Size: 313 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

davidecolla/semantic_coherence_markers
  • 1.12 environment.yml

Size: 390 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

lifebit-ai/phewas
Performs a PheWAS analysis & generates a Manhattan plot using the PheWAS R package
  • environment.yml

Size: 6.78 MB - Last synced: 25 days ago - Pushed: about 1 year ago

nlm-irp-jianglab/Evolink
:palm_tree: A Phylogenetic Approach for Rapid Identification of Genotype-Phenotype Associations in Large-scale Microbial Multi-species Data
  • 2.14 environment.yml

Size: 251 MB - Last synced: 9 months ago - Pushed: 9 months ago

leipzig/metadata-in-rcr
code and data related to "The Role of Metadata in Reproducible Computational Research"
  • .binder/environment.yml

Size: 54.5 MB - Last synced: 13 days ago - Pushed: over 2 years ago

GWeindel/lecture_R
A really short introduction (4 hours lecture) for psychology doctoral students at Aix Marseille University.
  • 2.7 environment.yml

Size: 4 MB - Last synced: about 1 year ago - Pushed: about 3 years ago

IdoBar/6003ESC_workshops_binder
Scientific Data Analysis Workshops (Binder-ready)
  • .binder/environment.yml

Size: 27.8 MB - Last synced: 10 months ago - Pushed: 10 months ago

upsetjs/upsetjs_r
😠 htmlwidget R bindings for UpSet.js for rendering UpSet plots, Euler, and Venn Diagrams
  • binder/environment.yml

Size: 4.16 MB - Last synced: 19 days ago - Pushed: about 1 year ago

NBISweden/LTS-A_Andersson_2010-MASCSEQ
Repository for long term support project 'Massive and parallel single-cell sequencing of eukaryotic plankton'
  • reports/rmarkdown/environment.yml

Size: 12.3 MB - Last synced: 12 months ago - Pushed: over 1 year ago

ajayago/NCMF_bioinformatics
  • 1.12 CMF/environment.yml

Size: 202 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

Ninomoriaty/circPipe
FTW
  • 1.10.* environment.yml

Last synced: about 1 year ago

nih-cfde/training-rstudio-binder
Multi-purpose Rstudio binder for training events
  • .binder/environment.yml

Size: 246 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

oliviergimenez/computo-deeplearning-occupany-lynx
  • environment.yml

Size: 690 MB - Last synced: about 2 months ago - Pushed: about 2 years ago

fkohrt/bachelorarbeit-code
  • 2.9.* binder/environment.yml

Last synced: about 1 year ago

kelly-sovacool/meta-repo
A meta-repository to organize my public projects.
  • 1.16 config/environment.yml

Size: 33.2 MB - Last synced: 9 months ago - Pushed: 9 months ago

canceromics/MeRIPseqPipe
MeRIPseqPipe：An integrated analysis pipeline for MeRIP-seq data based on Nextflow.
  • 1.10.* environment.yml

Size: 38 MB - Last synced: about 9 hours ago - Pushed: about 2 years ago

earthlab/r-python-eds-lessons-env
An R and Python Docker environment to build the earthdatascience.org lessons via CircleCI
  • environment.yml

Size: 256 KB - Last synced: about 2 months ago - Pushed: over 2 years ago

reisportela/HDFE
  • environment.yml

Size: 8.7 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

tialiv/Cell_line_bulk_seq_202011
Bulk RNA sequencing project on ovarian cell lines (COV434, KGN, primary cells) after exposure to DMSO, DES 10-6M & 10-10M and KTZ 10-5M & 10-9M.
  • 2.11.* environment.yml

Size: 12.9 MB - Last synced: 17 days ago - Pushed: over 1 year ago

jamesfitton/cxr
Intertidal water occurrence generator from Sentinel 2 satellite data and Google Earth Engine
  • 2.16 environment.yml

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

aw236/boilerplate_code
best functions
  • 1.12.* environment.yml

Size: 380 KB - Last synced: 27 days ago - Pushed: 12 months ago

lifebit-ai/gwas
GWAS pipeline using SAIGE
  • environment.yml

Size: 37.4 MB - Last synced: 25 days ago - Pushed: about 1 year ago

lifebit-ai/prs
Polygenic Risk Scores Pipeline to calculate genetic risk score for any given phenotype/trait (using PRSice)
  • 2.4.* environment.yml

Size: 57.6 MB - Last synced: 25 days ago - Pushed: about 1 year ago

andrealauria104/ngsRtools
A Suite of R Packages for NGS-based Epigenomic Data Analysis.
  • 1.12.* data/environment.yml

Size: 714 KB - Last synced: 27 days ago - Pushed: about 1 year ago

brucemoran/somatic_n-of-1
Somatic-Germline n-of-1 DNAseq Analysis
  • environment.yaml

Size: 317 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

lifebit-ai/pcgr-nf
Pipeline to run pcgr tool on vcf file
  • 2.4.* environment.yml

Size: 1.19 MB - Last synced: 25 days ago - Pushed: about 1 year ago

ucdavisdatalab/research-toolkits
Repository to host DataLab researcher toolkits.
  • 2.6 environment.yml

Size: 35.1 MB - Last synced: 9 months ago - Pushed: 9 months ago

ngs-docs/2020-ggg-201b-rnaseq
  • binder/environment.yml

Size: 40.1 MB - Last synced: about 2 months ago - Pushed: 7 months ago

XinyanHe/INFOX Fork of FORCOLAB-UofT/INFOX
This is a prototype for overview of GitHub forks.
  • 1.8 environment.yaml

Size: 12.6 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

jtilly/matchingR
Algorithms for Matching Markets in R and C++
  • environment.yml

Size: 2.8 MB - Last synced: 5 months ago - Pushed: over 1 year ago

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

Size: 520 KB - Last synced: 7 months ago - Pushed: almost 3 years ago

scilifelab-lts/lts-workflows-sm-scrnaseq
  • 1.8.* lts_workflows_sm_scrnaseq/environment.yaml

Size: 2.28 MB - Last synced: over 1 year ago

ecmaggioncalda/2022_07_06_Kleb_GWAS_MIC
  • config/environment.yml

Size: 306 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

wrightdw/COG-UK-ME
COG-UK Mutation Explorer
  • 2.8 environment.yml

Size: 105 MB - Last synced: 3 months ago - Pushed: 3 months ago

mozilla/partybal
  • environment.yml

Size: 56.6 KB - Last synced: about 16 hours ago - Pushed: 7 months ago

naim-panjwani/LocusFocus
Application of the Simple Sum method for testing co-localization of GWAS with any other SNP-level data (e.g. eQTL data)
  • 2.3 environments/environment.yml

Size: 76.7 MB - Last synced: 4 days ago - Pushed: about 1 year ago

data-analysis5/phenotypes/process.phenotypes
automated phenotype standardization and reporting
  • environment.yaml

Last synced: over 1 year ago

kevinpryan/caf-subtype-analysis
  • 2.14 environment.yml

Size: 56.9 MB - Last synced: 8 months ago - Pushed: 8 months ago

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

Size: 23.7 MB - Last synced: 10 months ago - Pushed: 10 months ago

ecmaggioncalda/2022_07_07_MRSA_GWAS_MIC
  • config/environment.yml

Size: 306 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

leipzig/m6a
Reproduction/refactor of Dominissini et al Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq
  • 1.10.* meripseqpipe/environment.yml

Size: 182 KB - Last synced: about 1 year ago - Pushed: over 2 years ago

mr-eyes/denovo-rnaseq
De novo assembly, Differential gene expression, and annotation workflow
  • 2.14 environment.yml

Size: 1.79 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

scilifelab-lts/reproducible_research_course
This repo contains files used in the exercises in the reproducible research course.
  • 1.12.* docker/environment.yml
  • 1.12.* git/environment.yml
  • 1.12.* jupyter/environment.yml

Size: 13.9 MB - Last synced: over 1 year ago

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

Size: 316 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

ecmaggioncalda/2022_07_06_MRSA_GWAS_SR
  • config/environment.yml

Size: 309 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

gonzalosm98/scRNA-SeqAnalysis
  • 2.11 environment.yml

Size: 62.5 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

ecemf/model_comparison
Model comparison reports
  • environment.yaml

Size: 113 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

indianadiez/git_tutorial
  • 1.12.* environment.yml

Size: 175 KB - Last synced: over 1 year ago

timmenck/toolsrr
  • 1.12.* git/environment.yml

Size: 276 KB - Last synced: over 1 year ago

cjc77/Fogg-Lab-RNA-Seq-analysis
Preliminary analysis and informatics for TCGA gynecological cancer data
  • 2.6.* environment.yml

Size: 61.3 MB - Last synced: 4 months ago - Pushed: over 1 year ago

SchlossLab/severe-CDI
Predicting CDI severity from OTUs
  • workflow/envs/environment.yml

Size: 275 MB - Last synced: 12 days ago - Pushed: 10 months ago

mfreitas/docker_dev_image
  • 1.10 environment.yml

Last synced: over 1 year ago

mfreitas/dsclub_jupyter
Jupyter docker image
  • 1.10 environment.yml

Last synced: over 1 year ago

jasbi/git_tutorial
  • 1.12.* environment.yml

Size: 196 KB - Last synced: over 1 year ago

armossa/Drought_index
Practice reproducible research while studying the state of drought around the globe
  • 2.17.* environment.yml

Size: 65.5 MB - Last synced: 5 months ago - Pushed: 5 months ago

athompson1991/crypto-project
Final project for machine learning class
  • 1.10 environment.yml

Size: 1.68 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

liaoherui/GDmicro
GDmicro - Use GCN and Deep adaptation network to classify host disease status based on human gut microbiome data.
  • 2.8 environment.yaml

Size: 3.57 MB - Last synced: 22 days ago - Pushed: about 2 months ago

macs3-project/genomics-analysis-pipelines Fork of taoliulab/genomics-analysis-pipelines
Pipeline codes for analyzing various genomics datasets based on MACS3
  • environment.yaml

Size: 1.46 MB - Last synced: 2 months ago - Pushed: 2 months ago

gagneurlab/transmicron
  • 2.14.* environment.yml

Size: 16.7 MB - Last synced: 5 days ago - Pushed: over 1 year ago