{"last_synced_at":"2026-08-01T04:29:30.749Z","source":"GitHub public API","privacy":"public repositories and public events only; no private repos, secrets, environment values, or hidden files requested","repositories":[{"name":"workout-tracker","full_name":"mikhaeelatefrizk/workout-tracker","html_url":"https://github.com/mikhaeelatefrizk/workout-tracker","homepage":null,"description":null,"generated_description":"","topics":[],"created_at":"2026-06-19T17:55:09Z","updated_at":"2026-07-28T10:57:43Z","pushed_at":"2026-07-28T10:57:22Z","archived":false,"fork":false,"size":206860,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["HTML","JavaScript"],"has_readme":false,"readme_excerpt":"","latest_commit":{"sha":"5b9d7001b3819d51e19a015d44db72bd7160e271","message":"Engine audit round 2: five fixes + behavior-preserving simplification\n\nAdversarial 5-dimension audit (mechanism / units / robustness / UI\nconsistency / science-vs-literature). Confirmed and fixed:\n- Triceps dual coach: converted-basis primary value now snaps to real\n pins, and card display / placeholders / one-tap autofill all use the\n SAME dual value (no more silent weightless logged sets).\n- Reps never auto-fill into a row without a weight (half-rows were\n invisible to the engine and volume).\n- Deload never fires when every judged set sits at the range ceiling\n (flat-at-top is success, not a plateau).\n- Step learner ignores warm-up-only sessions (top <70% of block median)\n and caps a derived \"smallest move\" at 4x the category default.\n- Stale-restart fallback forces a real one-step reduction on light\n loads (epsilon-guarded); Stats \"Stalled\" badge now uses the same\n strict both-transitions plateau predicate as the Coach.\nScience verdicts: all engine parameters within literature ranges.\nSimplification (golden-master verified byte-identical, 612 cases,\nsha256 5d471dc9...): shared epleyE1RM/sessionBestE1RM/sessionTotalReps/\nslopeOf between Coach and Stats; removed dead EXERCISE_BY_FN and\nrepRange dead branch. sw cache v17.\n\nCo-Authored-By: Claude Fable 5 ","date":"2026-07-28T10:57:18Z","url":"https://github.com/mikhaeelatefrizk/workout-tracker/commit/5b9d7001b3819d51e19a015d44db72bd7160e271"}},{"name":"mikhaeelatefrizk.github.io","full_name":"mikhaeelatefrizk/mikhaeelatefrizk.github.io","html_url":"https://github.com/mikhaeelatefrizk/mikhaeelatefrizk.github.io","homepage":null,"description":"Personal site root — serves Digital Asset Links for the Workout app (TWA)","generated_description":"Personal site root — serves Digital Asset Links for the Workout app (TWA)","topics":[],"created_at":"2026-07-18T22:02:52Z","updated_at":"2026-07-18T22:25:12Z","pushed_at":"2026-07-18T22:25:08Z","archived":false,"fork":false,"size":2,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["HTML"],"has_readme":true,"readme_excerpt":"# mikhaeelatefrizk.github.io\nPersonal site root — serves Digital Asset Links for the Workout app (TWA)\n","latest_commit":{"sha":"08dc2f9793544b33dc1097b0dd210d4b00b2b8ab","message":"Add .nojekyll so .well-known/assetlinks.json is served","date":"2026-07-18T22:25:08Z","url":"https://github.com/mikhaeelatefrizk/mikhaeelatefrizk.github.io/commit/08dc2f9793544b33dc1097b0dd210d4b00b2b8ab"}},{"name":"affect-labeling-review","full_name":"mikhaeelatefrizk/affect-labeling-review","html_url":"https://github.com/mikhaeelatefrizk/affect-labeling-review","homepage":"https://mikhaeel-portfolio.vercel.app/projects/affect-labeling-review/","description":"Systematic review and meta-analysis of affect labeling (Lieberman et al. 2007 paradigm). Pre-registered protocol, real random-effects meta-analysis (k=9), PRISMA 2020, RoB 2 / ROBINS-I, ~14,000-word manuscript. Open data and code.","generated_description":"This repository is the full open-research package for a pre-registered (PROSPERO) systematic review and random-effects meta-analysis of **affect labeling** — the psychological and neuroscientific phenomenon, originating in Lieberman et al. (2007), in which putting feelings into words attenuates emotional responses.","topics":["affect-labeling","amygdala","clinical-psychology","emotion-regulation","meta-analysis","neuroscience","open-science","prefrontal-cortex","preregistration","prisma-2020","psychology","psychophysiology","replication-crisis","skin-conductance","systematic-review"],"created_at":"2026-04-26T22:09:05Z","updated_at":"2026-07-10T20:02:41Z","pushed_at":"2026-05-27T14:35:30Z","archived":false,"fork":false,"size":3951,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["Python","TeX","Makefile"],"has_readme":true,"readme_excerpt":"# Putting feelings into words: a systematic review and meta-analysis of affect labeling\n\n[![License: code MIT](https://img.shields.io/badge/code-MIT-blue.svg)](LICENSE-CODE)\n[![License: manuscript CC-BY-4.0](https://img.shields.io/badge/manuscript-CC--BY--4.0-lightgrey.svg)](LICENSE-MANUSCRIPT)\n[![License: data CC-BY-4.0](https://img.shields.io/badge/data-CC--BY--4.0-lightgrey.svg)](LICENSE-DATA)\n[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.20109595.svg)](https://doi.org/10.5281/zenodo.20109595)\n[![Cite this repository](https://img.shields.io/badge/cite-CITATION.cff-green.svg)](CITATION.cff)\n[![ORCID](https://img.shields.io/badge/ORCID-0009--0006--1069--9558-A6CE39?logo=orcid&logoColor=white)](https://orcid.org/0009-0006-1069-9558)\n\nThis repository is the full open-research package for a pre-registered (PROSPERO) systematic review and random-effects meta-analysis of **affect labeling** — the psychological and neuroscientific phenomenon, originating in Lieberman et al. (2007), in which putting feelings into words attenuates emotional responses.\n\n> **Status: Preprint / working paper. Not yet peer-reviewed.** All findings are provisional and subject to revision pending external","latest_commit":{"sha":"6946f8a4e56f4f10fb794324c41d643822bd0228","message":"Merge pull request #1 from mikhaeelatefrizk/claude/github-projects-audit-P9FRd\n\ndocs: remove stale \"CI auto-trigger off\" claim in repo-structure block","date":"2026-05-27T14:35:27Z","url":"https://github.com/mikhaeelatefrizk/affect-labeling-review/commit/6946f8a4e56f4f10fb794324c41d643822bd0228"}},{"name":"bioinformatics-portfolio","full_name":"mikhaeelatefrizk/bioinformatics-portfolio","html_url":"https://github.com/mikhaeelatefrizk/bioinformatics-portfolio","homepage":"https://mikhaeel-portfolio.vercel.app/projects/bioinformatics-portfolio/","description":"End-to-end bioinformatics portfolio: RNA-seq DE analysis (silver fox domestication, GEO GSE76517), TCGA-KIRC clinical survival analysis, and scRNA-seq of PBMCs (Seurat v5). Fully reproducible from raw data to publication-quality figures.","generated_description":"Three end-to-end reproducible bioinformatics analyses on public datasets —","topics":["bioinformatics","computational-biology","cox-regression","deseq2","differential-expression","go-enrichment","r","reproducible-research","rna-seq","scrna-seq","seurat","single-cell","survival-analysis","tcga"],"created_at":"2026-04-12T05:07:43Z","updated_at":"2026-07-10T20:02:40Z","pushed_at":"2026-06-14T15:54:38Z","archived":false,"fork":false,"size":7004,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["R"],"has_readme":true,"readme_excerpt":"# Bioinformatics Portfolio\n\nThree end-to-end reproducible bioinformatics analyses on public datasets —\nbulk RNA-seq differential expression, clinical survival analysis, and\nsingle-cell RNA-seq — each built from raw data to publication-quality figures.\n\n**Author:** Mikhaeel Atef Rizk Wahba · Cairo, Egypt · [ORCID](https://orcid.org/0009-0006-1069-9558) · [GitHub](https://github.com/mikhaeelatefrizk) · [mikhaeelatefrizk@proton.me](mailto:mikhaeelatefrizk@proton.me)\n\n---\n\n## The three projects\n\n### 01 · RNA-seq differential expression\n**Silver fox domestication — Belyaev / Trut experiment, Novosibirsk**\n\nA reanalysis of the 1959-present Russian silver fox domestication experiment\n([Wang et al. 2018, *PNAS*](https://doi.org/10.1073/pnas.1800889115)).\nTwelve tame vs. twelve aggressive foxes, prefrontal-cortex RNA-seq,\nDESeq2 + apeglm differential expression, clusterProfiler GO enrichment.\n\n- **679 DE genes** at padj < 0.05 (584 up-regulated in the tame line, 95 down)\n- **PCDHGA1** (padj 2.4×10⁻⁶) and **DKKL1** (padj 7.6×10⁻⁶) — the two genes\n Wang et al. specifically called out as their top hits — recovered as\n ranks 3 and 5 here with DESeq2 instead of edgeR (independent methodology\n ","latest_commit":{"sha":"400183f2130b0161070e0bbfb5d39bac311fa008","message":"Standardize author name to Mikhaeel Atef Rizk Wahba; add ORCID and Cairo, Egypt","date":"2026-06-14T15:54:36Z","url":"https://github.com/mikhaeelatefrizk/bioinformatics-portfolio/commit/400183f2130b0161070e0bbfb5d39bac311fa008"}},{"name":"bindsight","full_name":"mikhaeelatefrizk/bindsight","html_url":"https://github.com/mikhaeelatefrizk/bindsight","homepage":"https://mikhaeel-portfolio.vercel.app/projects/bindsight/","description":"RNA-seq counts to ranked de novo protein binder candidates, with full provenance back to the patient cohort.","generated_description":"> **Expression → Binder.** The first open-source pipeline that takes RNA-seq counts and outputs ranked de novo protein binder candidates, with full provenance back to the patient cohort.","topics":["alphafold","bioinformatics","boltz","computational-biology","de-novo-binder-design","protein-design","proteinmpnn","prov-o","reproducibility","rfdiffusion","rna-seq","ro-crate","streamlit"],"created_at":"2026-05-10T22:13:24Z","updated_at":"2026-07-10T20:02:17Z","pushed_at":"2026-07-29T15:39:32Z","archived":false,"fork":false,"size":3432,"stargazers_count":1,"forks_count":0,"default_branch":"main","languages":["Python","TeX","HTML","Jinja","CSS","Dockerfile"],"has_readme":true,"readme_excerpt":"# bindsight\n\n> **Expression → Binder.** The first open-source pipeline that takes RNA-seq counts and outputs ranked de novo protein binder candidates, with full provenance back to the patient cohort.\n\n[![HF Space](https://img.shields.io/badge/%F0%9F%A4%97%20HF%20Space-bindsight-yellow.svg)](https://huggingface.co/spaces/Mikhaeelatefrizk/bindsight)\n[![Open in Streamlit](https://static.streamlit.io/badges/streamlit_badge_black_white.svg)](https://bindsight.streamlit.app/)\n[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.20121496.svg)](https://doi.org/10.5281/zenodo.20121496)\n[![License: AGPL v3](https://img.shields.io/badge/License-AGPL_v3-blue.svg)](LICENSE)\n[![Python: 3.11+](https://img.shields.io/badge/python-3.11+-blue.svg)](https://www.python.org/downloads/)\n[![CI](https://github.com/mikhaeelatefrizk/bindsight/actions/workflows/ci.yml/badge.svg)](https://github.com/mikhaeelatefrizk/bindsight/actions/workflows/ci.yml)\n[![Workflow: Snakemake](https://img.shields.io/badge/workflow-Snakemake-brightgreen.svg)](https://snakemake.github.io/)\n\n## 👉 Try it live\n\n**Primary** (Hugging Face Space, 16 GB CPU): **[huggingface.co/spaces/Mikhaeelatefrizk/bindsight](https://huggingface.co/sp","latest_commit":{"sha":"d21612038f11f70c6e79d15f823a9228e41149d7","message":"Merge PR #27: post-v0.2.0 polish — fix stale docs, broken ui quickstart, CHANGELOG contradiction\n\nPost-v0.2.0 polish: fix stale pre-v0.2 docs, broken `bindsight ui` quickstart, CHANGELOG number contradiction","date":"2026-06-26T15:00:07Z","url":"https://github.com/mikhaeelatefrizk/bindsight/commit/d21612038f11f70c6e79d15f823a9228e41149d7"}},{"name":"mikhaeelatefrizk","full_name":"mikhaeelatefrizk/mikhaeelatefrizk","html_url":"https://github.com/mikhaeelatefrizk/mikhaeelatefrizk","homepage":"https://mikhaeel-portfolio.vercel.app","description":"Evidence-first portfolio + GitHub Profile README · Live at mikhaeel-portfolio.vercel.app","generated_description":"

Mikhaeel Atef Rizk Wahba

","topics":["ai","bioinformatics","computational-biology","evidence-first","github-profile","portfolio"],"created_at":"2026-04-28T23:20:02Z","updated_at":"2026-07-10T20:02:07Z","pushed_at":"2026-07-10T06:56:23Z","archived":false,"fork":false,"size":50,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["HTML","CSS","JavaScript"],"has_readme":true,"readme_excerpt":"

Mikhaeel Atef Rizk Wahba

\n\n

\n Computational biology · bioinformatics · drug discovery\n

\n\n

\n PharmD turned computational biologist. I work end-to-end — from raw public data\n through reproducible analysis to publication-quality results — with every\n methodological choice documented in the open.\n

\n\n

\n \n \"Portfolio\"\n \n \"Email\"\n \n \"ORCID\"\n \n \"Hugging Outerbase has been acquired by Cloudflare. This repository will not be receiving any additional changes.","topics":[],"created_at":"2026-06-07T21:26:02Z","updated_at":"2026-06-07T21:26:02Z","pushed_at":"2026-06-09T20:31:24Z","archived":false,"fork":true,"size":7163,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["TypeScript","CSS","Shell"],"has_readme":true,"readme_excerpt":"> [!CAUTION]\n> Outerbase has been acquired by Cloudflare. This repository will not be receiving any additional changes.\n\n
\n\n

\n \n \"StarbaseDB\n \n

\n\n

StarbaseDB

\n

\n Open source, scale-to-zero, HTTP SQLite database built on top of Cloudflare Durable Objects.\n

\n\n
\n \n \n \n Portfolio project demonstrating DeFi reward math, secure contract design, and test-driven development. Open to freelance smart-contract work — see contact below.\n\n## Features\n- **Stake / withdraw** an ERC-20 staking token at any time.\n- **Linear reward distribution** of a separate reward token over `rewardsDuration`.\n- **`exit()`** to withdraw the full stake and claim rewards in one call.\n- **Owner-funded reward periods** via `notifyRewardAmount`, with top-up support mid-period.\n\n## Security choices\n- `SafeERC20` for non-standard tokens; `ReentrancyGuard` on every token-moving entrypoint.\n- `updateReward` modifier settles accrual **before** any balance change (no stale rewards).\n- Reward rate is **capped by the contract's actual reward-token balance** — it can never promise more than it holds.\n- Custom errors, full NatSpec, che","latest_commit":{"sha":"95c8499e819a76b773ff957bf5a7ecbaa1adf55c","message":"Add StakingRewards: ERC-20 staking with linear rewards (Synthetix pattern)\n\n- Stake/withdraw + linear reward distribution over a funded period\n- SafeERC20 + ReentrancyGuard + updateReward accrual; rate capped by balance\n- 12 passing tests (unit + fuzz) + GitHub Actions CI\n\nCo-Authored-By: Claude Opus 4.8 ","date":"2026-06-07T01:18:26Z","url":"https://github.com/mikhaeelatefrizk/staking-rewards/commit/95c8499e819a76b773ff957bf5a7ecbaa1adf55c"}},{"name":"token-vesting","full_name":"mikhaeelatefrizk/token-vesting","html_url":"https://github.com/mikhaeelatefrizk/token-vesting","homepage":null,"description":"Secure linear token vesting (Solidity + Foundry): cliff, revocable grants, full unit + fuzz tests","generated_description":"A production-style ERC-20 **token vesting** contract with an optional cliff, per-beneficiary schedules, and owner-revocable grants. Built with security best-practices and a thorough Foundry test suite (unit + fuzz).","topics":["blockchain","defi","ethereum","foundry","smart-contracts","solidity"],"created_at":"2026-06-06T22:09:04Z","updated_at":"2026-06-06T22:10:21Z","pushed_at":"2026-06-06T22:09:07Z","archived":false,"fork":false,"size":6,"stargazers_count":0,"forks_count":0,"default_branch":"main","languages":["Solidity"],"has_readme":true,"readme_excerpt":"# TokenVesting — Secure Linear Vesting (Solidity + Foundry)\n\nA production-style ERC-20 **token vesting** contract with an optional cliff, per-beneficiary schedules, and owner-revocable grants. Built with security best-practices and a thorough Foundry test suite (unit + fuzz).\n\n> Portfolio project demonstrating Solidity, secure contract design, and test-driven development. Open to freelance smart-contract work — see contact below.\n\n## Features\n- **Linear vesting** with an optional **cliff** (nothing claimable before it).\n- **One schedule per beneficiary**, fully introspectable on-chain.\n- **Owner-revocable** grants: on revoke, vested tokens go to the beneficiary, the unvested remainder returns to the owner.\n- **`totalCommitted` accounting** prevents the owner from over-allocating the contract's balance.\n\n## Security choices\n- `SafeERC20` for tokens that don't return a bool.\n- `ReentrancyGuard` on every token-moving function.\n- **Checks-Effects-Interactions**: state updated before transfers.\n- Custom errors, full NatSpec, and `0.8.x` checked arithmetic.\n\n## Tech\nSolidity `0.8.34` · Foundry (`forge`) · OpenZeppelin Contracts v5 · unit + fuzz tests.\n\n## Quickstart\n```bash\n# install Fou","latest_commit":{"sha":"26c9766b530bf9e34155b7b571caea6417f64a8d","message":"Add TokenVesting: secure linear vesting with cliff + revocable grants\n\n- Linear ERC-20 vesting with optional cliff, one schedule per beneficiary\n- Owner-revocable grants; 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Mostly command line based, and free or open-source. 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