PaperPush: Automate submissions to journals, conferences, and preprints

PaperPush, a new open-source command-line tool from the Pachter Lab, automates manuscript submissions to preprint servers, journals, and conferences by filling out submission portals with a single command. The tool supports venues including arXiv, bioRxiv, medRxiv, Nature, Science, and Cell, and can use an LLM API to autofill submission forms. PaperPush is licensed under BSD-2 and available via pip.

Prepare manuscripts for submission to preprint servers, venues, and conferences with just a few commands. No need to spend hours filling out forms manually. Just provide a manuscript directory and submission venue of interest, and paperpush will fill out the submission portal for you. pip install paperpush To install the playwright dependency and the required browsers, run: playwright install Prepare my manuscript in /PATH/TO/MANUSCRIPT/DIRECTORY for submission to VENUE with PaperPush. The Claude skill /paperpush-prepare-submission helps with this. See docs/example-session.md /pachterlab/paperpush/blob/main/docs/example-session.md for a full worked example of this flow. paperpush subfile VENUE : creates a file VENUE.sub that is a template for the VENUE submission. fill out VENUE.sub - 3 options: a. fill out manually b. Ask an LLM : Use Claude skill /paperpush-autofill , or any AI agent following. AGENTS.md c. paperpush autofill -d /PATH/TO/MANUSCRIPT/DIRECTORY --engine api VENUE.sub : Use an LLM API. Requires an API key. paperpush validate VENUE.sub : run the pre-submission checks on the filled VENUE.sub . paperpush login VENUE : log in to the VENUE submission portal paperpush submit VENUE.sub : Fill out the VENUE submission portal. Will not actually submit the manuscript. We highly recommend reviewing the submission form in the venue portal before clicking submit. scripts/paperpush pipeline.py sequentially runs the commands above — subfile , autofill , validate , login , submit . This allows going from a manuscript directory to a filled submission portal in just one command. python scripts/paperpush pipeline.py -d /PATH/TO/MANUSCRIPT/DIRECTORY --engine api VENUE See python scripts/paperpush pipeline.py --help for the full list of options, grouped by step. Preprint servers: arXiv https://arxiv.org , bioRxiv https://www.biorxiv.org , medRxiv https://www.medrxiv.org Journals: Bioinformatics https://academic.oup.com/bioinformatics , BMC Bioinformatics https://link.springer.com/journal/12859 , Cell https://www.cell.com/cell/home , Cell Genomics https://www.cell.com/cell-genomics/home , Cell Systems https://www.cell.com/cell-systems/home , Discrete Mathematics https://www.sciencedirect.com/journal/discrete-mathematics , Genome Biology https://genomebiology.biomedcentral.com , Nature https://www.nature.com , Nature Biotechnology https://www.nature.com/nbt , Nature Methods https://www.nature.com/nmeth , Nucleic Acids Research https://academic.oup.com/nar , PLOS Computational Biology https://journal.plos.org/ploscompbiol/ , Science https://www.science.org/journal/science , Science Advances https://www.science.org/journal/sciadv , Science Immunology https://www.science.org/journal/sciimmunol , Science Robotics https://www.science.org/journal/scirobotics , Science Signaling https://www.science.org/journal/signaling , Science Translational Medicine https://www.science.org/journal/stm Conferences: none yet View the list on the command line with paperpush --venues . For more details, see venues.md See CONTRIBUTING.md /pachterlab/paperpush/blob/main/CONTRIBUTING.md for instructions on adding new venues. See for tips on adding new venues and running unit tests. /pachterlab/paperpush/blob/main/DEVELOPMENT.md DEVELOPMENT.md If you are an AI agent asked to submit a manuscript on the user's behalf, read AGENTS.md /pachterlab/paperpush/blob/main/AGENTS.md . It describes how to run the full pipeline while doing your own field extraction reading the manuscript and writing a values.json for the default --engine manual rather than relying on the API-backed engine. Claude Code should prefer the /paperpush-prepare-submission and /paperpush-autofill skills, which encode the same contract.This project is licensed under the BSD-2 License - see the LICENSE /pachterlab/paperpush/blob/main/LICENSE file for details. Developed by Joe Rich