manuscript | Topic | Ecosyste.ms: Repos

Topic: "manuscript"

greenelab/deep-review

A collaboratively written review paper on deep learning, genomics, and precision medicine

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easystats/report

:scroll: :tada: Automated reporting of objects in R

Language: R - Size: 19 MB - Last synced at: 6 days ago - Pushed at: 8 days ago - Stars: 703 - Forks: 70

papaja (Preparing APA Journal Articles) is an R package that provides document formats to produce complete APA manuscripts from RMarkdown-files (PDF and Word documents) and helper functions that facilitate reporting statistics, tables, and plots.

Language: HTML - Size: 16 MB - Last synced at: 28 days ago - Pushed at: about 1 month ago - Stars: 664 - Forks: 136

massimoaria/bibliometrix

An R-tool for comprehensive science mapping analysis. A package for quantitative research in scientometrics and bibliometrics.

Language: R - Size: 110 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 559 - Forks: 154

manubot/rootstock

Clone me to create your Manubot manuscript

Language: HTML - Size: 7.5 MB - Last synced at: about 1 month ago - Pushed at: 5 months ago - Stars: 460 - Forks: 188

Benjamin-Lee/deep-rules

Ten Quick Tips for Deep Learning in Biology

Language: HTML - Size: 44.8 MB - Last synced at: 8 days ago - Pushed at: over 3 years ago - Stars: 226 - Forks: 45

academic/vipa 📦

:books: Virtual Intelligent Publishing Assistant (Vipa): A journal management and publishing software

Language: PHP - Size: 29.8 MB - Last synced at: 8 months ago - Pushed at: over 7 years ago - Stars: 128 - Forks: 30

greenelab/covid19-review

A collaborative review of the emerging COVID-19 literature. Join the chat here:

Language: TeX - Size: 8.75 GB - Last synced at: 2 months ago - Pushed at: over 1 year ago - Stars: 117 - Forks: 82

VeinsOfTheEarth/RivGraph

Extracting and quantifying graphical representations of river and delta channel networks from binary masks

Language: Python - Size: 26.4 MB - Last synced at: 2 days ago - Pushed at: 9 months ago - Stars: 87 - Forks: 28

philippbayer/submission_checklist

A checklist to help you avoid all those minor errors when submitting a scientific manuscript

Size: 26.4 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 82 - Forks: 12

floriankrueger/Manuscript

AutoLayoutKit in pure Swift.

Language: Swift - Size: 532 KB - Last synced at: 15 days ago - Pushed at: about 8 years ago - Stars: 76 - Forks: 6

greenelab/adage

Data and code related to the paper "ADAGE-Based Integration of Publicly Available Pseudomonas aeruginosa..." Jie Tan, et al · mSystems · 2016

Language: Python - Size: 79.1 MB - Last synced at: 3 days ago - Pushed at: almost 9 years ago - Stars: 61 - Forks: 30

manubot/try-manubot

A repository to practice contributing to a Manubot manuscript

Language: HTML - Size: 2.19 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 45 - Forks: 114

cboettig/nonparametric-bayes

:notebook: Non-parametric Bayesian Inference for Conservation Decisions

Language: TeX - Size: 20.6 MB - Last synced at: about 1 month ago - Pushed at: about 5 years ago - Stars: 45 - Forks: 12

VeinsOfTheEarth/rabpro

Delineating watershed basins and computing attribute statistics using Google Earth Engine

Language: Python - Size: 23.8 MB - Last synced at: 3 days ago - Pushed at: 9 days ago - Stars: 35 - Forks: 8

greenelab/scihub-manuscript

Manuscript for the Sci-Hub Coverage Study

Language: HTML - Size: 36.7 MB - Last synced at: 3 days ago - Pushed at: almost 2 years ago - Stars: 33 - Forks: 16

leeper/make-example

An example of using make for a data analysis project

Language: R - Size: 27.3 KB - Last synced at: about 1 month ago - Pushed at: about 6 years ago - Stars: 33 - Forks: 3

XSLiuLab/tumor-immunogenicity-score

TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020

Language: R - Size: 306 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 29 - Forks: 14

balta2ar/manuscript-dl

Collection of scripts to download digitized manuscripts from various online libraries

Language: Python - Size: 24.4 KB - Last synced at: about 1 month ago - Pushed at: 4 months ago - Stars: 25 - Forks: 4

piero-g/markdown-workflow

A pandoc-based layout workflow for scholarly journals. It relies on markdown, YAML and pandoc to obtain multiple publication formats

Language: Shell - Size: 348 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 19 - Forks: 4

MarioniLab/EmptyDrops2017

Code for the empty droplet and cell detection project from the HCA Hackathon.

Language: TeX - Size: 531 KB - Last synced at: 10 months ago - Pushed at: about 6 years ago - Stars: 18 - Forks: 4

MarioniLab/Deconvolution2016

Code and manuscript files for Aaron and Karsten's deconvolution paper.

Language: TeX - Size: 408 KB - Last synced at: 10 months ago - Pushed at: over 6 years ago - Stars: 17 - Forks: 9

trydave/Mentor4Nepal

#Mentor4Nepal Initiative is for recent graduates and early career professionals focusing on the enhancement of one’s skill set, support for a research project, and a collaborative publication.

Language: CSS - Size: 1.79 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 16 - Forks: 3

pblischak/polyploid-genotyping

SNP genotyping in polyploids

Language: C++ - Size: 16.9 MB - Last synced at: 29 days ago - Pushed at: over 4 years ago - Stars: 16 - Forks: 3

cboettig/pdg_control

:notebook: Pretty Darn Good Control: applications in optimal control

Language: R - Size: 28.5 MB - Last synced at: about 1 month ago - Pushed at: over 7 years ago - Stars: 11 - Forks: 1

GLEON/kgml_waterbody-area

Using knowledge-guided machine learning to assess patterns of areal change in waterbodies across the contiguous US

Language: Jupyter Notebook - Size: 43.1 MB - Last synced at: 26 days ago - Pushed at: about 1 year ago - Stars: 10 - Forks: 5

swung-research/3d-csem-open-source-landscape

Werthmüller, D., R. Rochlitz, O. Castillo-Reyes, and L. Heagy, 2021, Towards an open-source landscape for 3-D CSEM modelling: Geophysical Journal International, 227(1), 644--659

Language: Jupyter Notebook - Size: 117 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 10 - Forks: 5

mikemc/differential-abundance-theory

A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.

Language: HTML - Size: 40.1 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 9 - Forks: 4

aeturrell/cookie-cutter-latex-book-manuscript

A simple book manuscript in latex designed for export to Word via pandoc

Language: TeX - Size: 96.7 KB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 9 - Forks: 3

cengels/skywriter

A distraction-free writer designed for novelists that exports to Markdown for easy integration with version control.

Language: C++ - Size: 1.14 MB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 9 - Forks: 0

GKalliatakis/LaTeX-Journal-Assistant

:memo: Your LaTeX-based assistant to count on when submitting your scientific documents

Language: TeX - Size: 723 KB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 9 - Forks: 3

bhaskatripathi/Journalfinder

The Scientific Journal Finder suggests the best matching journals for a given research paper.

Language: Python - Size: 71.3 KB - Last synced at: 25 days ago - Pushed at: about 2 years ago - Stars: 8 - Forks: 1

sckott/textmine

rOpenSci textmining manuscript

Language: TeX - Size: 4.14 MB - Last synced at: 3 days ago - Pushed at: over 5 years ago - Stars: 8 - Forks: 1

MarioniLab/PlateEffects2016

Code and manuscript files for Aaron's plate effect paper.

Language: PostScript - Size: 1.41 MB - Last synced at: 10 months ago - Pushed at: over 7 years ago - Stars: 8 - Forks: 3

russelljjarvis/ScienceAccessibility

Analysis of accessibility of science writing.

Language: Python - Size: 83 MB - Last synced at: 10 days ago - Pushed at: about 4 years ago - Stars: 7 - Forks: 2

dhimmel/rephetio-manuscript

Markdown source for the Project Rephetio Manuscript https://doi.org/10.7554/eLife.26726

Language: HTML - Size: 33.8 MB - Last synced at: 26 days ago - Pushed at: over 2 years ago - Stars: 6 - Forks: 1

noaa-afsc/berchukseals-haulout

Repository and research compendium in support of the manuscript "Spring haul-out behavior of seals in the Bering and Chukchi seas." Maintained by Josh London (@jmlondon / [email protected])

Language: HTML - Size: 350 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 5 - Forks: 0

greenelab/connectivity-search-manuscript

Manuscript describing Hetnet Connectivity Search

Language: HTML - Size: 57.2 MB - Last synced at: 27 days ago - Pushed at: almost 2 years ago - Stars: 5 - Forks: 10

habedi/SurvivalAnalysisQACommunities

The repository hosts the code, data, and other artefacts for the paper "Survival analysis for user disengagement prediction: question-and-answering communities' case", available here: https://rdcu.be/cSl24

Language: Jupyter Notebook - Size: 741 KB - Last synced at: 12 days ago - Pushed at: over 2 years ago - Stars: 5 - Forks: 0

ying-li-python/citation-generator

Retrieve PubMed article information to create citations using NCBI's Entrez (API)

Language: Python - Size: 2.55 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 5 - Forks: 4

greenelab/iscb-diversity-manuscript

Analysis of ISCB Fellows and Keynotes Reveals Disparities

Language: HTML - Size: 48.8 MB - Last synced at: 2 months ago - Pushed at: over 3 years ago - Stars: 5 - Forks: 6

cboettig/decisions-vs-transients

:notebook:

Language: TeX - Size: 202 MB - Last synced at: about 1 month ago - Pushed at: over 4 years ago - Stars: 5 - Forks: 0

greenelab/biopriors-review

A literature review of biologically constrained machine learning models

Language: HTML - Size: 3.62 MB - Last synced at: 2 months ago - Pushed at: over 5 years ago - Stars: 5 - Forks: 1

JesperGrud/PCHiC_3T3L1

Size: 120 KB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 5 - Forks: 9

maxbiostat/opinion_pooling

Bits and pieces on (logarithmic) opinion pooling

Language: TeX - Size: 265 MB - Last synced at: 15 days ago - Pushed at: about 3 years ago - Stars: 4 - Forks: 2

stencila/thema 📦

🎨 Themes for executable documents

Language: TypeScript - Size: 102 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 4 - Forks: 4

texchi2/pvalueTex

Supplementary Material of manuscript, and Cutoff Finding R script

Language: R - Size: 22 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 4 - Forks: 1

nat2bee/Foragers_vs_Nurses

Data and scripts from the manuscript: Gene expression and epigenetics reveal species-specific mechanisms acting upon common molecular pathways in the evolution of task division in bees

Language: R - Size: 73.9 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 4 - Forks: 1

ReproducibleQM/NES

The National Eutrophication Survey: lake characteristics and historical nutrient concentrations

Language: TeX - Size: 41.6 MB - Last synced at: 10 months ago - Pushed at: over 5 years ago - Stars: 4 - Forks: 4

selman92/fogbugz-report-generator

Generates weekly reports using Manuscript API.

Language: C# - Size: 26.4 KB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 4 - Forks: 1

MooersLab/manuscriptInLaTeX

Template for the first submission of a manuscript

Language: TeX - Size: 2.01 MB - Last synced at: 1 day ago - Pushed at: 2 months ago - Stars: 3 - Forks: 5

DOE-ICoM/geowq-chesapeake

Geographically aware estimates of remotely sensed water properties for Chesapeake Bay

Language: Python - Size: 45.6 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 3 - Forks: 0

greenelab/xswap-manuscript

Manuscript on XSwap network permutation and hetnet node degrees

Language: HTML - Size: 24.9 MB - Last synced at: 2 months ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 5

mihaiconstantin/paperer

`paperer` is a lightweight tool that simplifies the creation of new LaTeX manuscripts by scaffolding projects based on pre-defined or custom templates. No need to manually copy files, just start writing in seconds!

Language: Shell - Size: 523 KB - Last synced at: 3 months ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 0

cont-limno/bathymetry

Imperfect slope measurements drive overestimation in geometric cone model of lake and reservoir depth

Language: TeX - Size: 262 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 0

greenelab/text_mined_hetnet_manuscript

Manuscript is on using snorkel to extract Heterogeneous Relationships from Pubmed Abstracts.

Language: HTML - Size: 32.4 MB - Last synced at: 2 months ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 5

computer-aided-biotech/better-cb

A compendium of tools for (better) computational biology.

Language: HTML - Size: 6.2 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 3

efernandezpascual/sylvanseeds 📦

Code, data and manuscript for "Fernández-Pascual (2021) SylvanSeeds, a seed germination database for temperate deciduous forests. Journal of Vegetation Science." https://doi.org/10.1111/jvs.12960

Language: R - Size: 264 MB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 3 - Forks: 0

gfranzini/MS_XXVIII-26

A digital edition and semi-diplomatic transcription of manuscript V, Verona, XXVIII(26): the oldest surviving manuscript of Augustine's De Civitate Dei.

Size: 2.58 MB - Last synced at: about 1 month ago - Pushed at: over 4 years ago - Stars: 3 - Forks: 1

dhimmel/psb-manuscript

Manuscript source for the People of the Pacific Symposium on Biocomputing

Language: HTML - Size: 18.9 MB - Last synced at: about 2 months ago - Pushed at: over 5 years ago - Stars: 3 - Forks: 20

greenelab/czi-hca-report

A repository that collects our findings from our efforts under the CZI/HCA project.

Language: CSS - Size: 14.4 MB - Last synced at: 3 days ago - Pushed at: over 6 years ago - Stars: 3 - Forks: 2

MarioniLab/SpikeIns2016

Code and manuscript files for Aaron's spike-in manuscript.

Language: TeX - Size: 445 KB - Last synced at: 10 months ago - Pushed at: almost 7 years ago - Stars: 3 - Forks: 2

andy123t/manuscript

LaTeX template for paper manuscript

Language: TeX - Size: 1.11 MB - Last synced at: about 1 month ago - Pushed at: 6 months ago - Stars: 2 - Forks: 1

1JunGu/Tracking_manuscript_status

tracking your submitted manuscript status and remind you when changed

Language: Python - Size: 159 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 2 - Forks: 0

sib-swiss/dh-mr-mark16

This Github webpage describes the SNSF MARK16 Manuscript Room API (https://mr-mark16.sib.swiss). It has been updated in this June 2023 by Silvano Aldà (Core-IT, SIB) based on a first code written by Jonathan Barda (Core-IT, SIB). MARK16 (2018-2023) has been led by Claire Clivaz (PI) with Mina Monier, Elisa Nury and Priscille Marschall (DH+, SIB).

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hemmelig/2022GC010564

Repository of data and code to accompany Bacon et al., 2022 (DOI: 10.1029/2022GC010564)

Language: Jupyter Notebook - Size: 6.02 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 1

nephlm/codex-manuscript-file-operations

A VSCode extension to help maintain an aritrary order of files by use of a numerical prefix.

Language: JavaScript - Size: 392 KB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

jsta/nes_connectivity_p

Does Freshwater Connectivity Influence Phosphorus Retention in Lakes?

Language: R - Size: 283 MB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

jasenfinch/Spectral_binning_as_an_approach_to_post-acquisition_processing_of_FIE-HRMS_data

Spectral binning as an approach to post-acquisition processing of high resolution FIE-HRMS metabolome fingerprinting data

Language: R - Size: 71.3 KB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

nhejazi/pub_medshift_interv_biostats

Source files for reproducing results reported in the manuscript "Nonparametric Causal Mediation Analysis for Stochastic Interventional (In)Direct Effects" (N.S. Hejazi, K.E. Rudolph, M.J. van der Laan, I. Díaz, Biostatistics, 2022)

Language: R - Size: 4.16 MB - Last synced at: about 1 month ago - Pushed at: almost 3 years ago - Stars: 2 - Forks: 1

agitter/my-manuscript

Test manuscript from https://github.com/manubot/rootstock

Language: HTML - Size: 2.08 MB - Last synced at: about 2 months ago - Pushed at: almost 3 years ago - Stars: 2 - Forks: 1

tbep-tech/wqtrends-manu

Manuscript materials for water quality trends assessment using GAMs

Language: HTML - Size: 2.02 GB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 2 - Forks: 1

amlalejini/Frontiers-DEVO-Special-Issue---Evolutionary-Consequences-of-Phenotypic-Plasticity

Source for our manuscript, "Adaptive phenotypic plasticity stabilizes evolution in fluctuating environments"

Language: TeX - Size: 7.48 MB - Last synced at: 2 months ago - Pushed at: almost 4 years ago - Stars: 2 - Forks: 0

Thavarshan/manuscrite 📦

📒 Laravel powered documentation site builder.

Language: PHP - Size: 1.22 MB - Last synced at: about 1 year ago - Pushed at: almost 4 years ago - Stars: 2 - Forks: 2