hjanime Goto Github PK

101

All learning projects

2015-biogas-cebitec

2020-august-advanced-scrnaseq

Building on material from Introduction to Single Cell RNA-Seq, this workshop aims to cover advanced topics, including TCR and trajectory analysis. Instruction in introductory analysis will not be provided.

2020-august-intro-scrnaseq

A workshop for biologists preparing to run their first single-cell RNA Seq experiment. No prior experience in bioinformatics necessary.

30daychartchallenge

My contributions to #30DayChartChallenge 2021

3d-genome-processing-tutorial

A 3D genome data processing tutorial for ISMB/ECCB 2017

aa_subtypes

Code for the MSB publication: Exploring amino acid functions and positional subtypes in a deep mutational landscape

academic-jiehuang

academic-job-market

🎓 Results of 2.5 years in search of a tenure-track academic job

acfs

Automatically exported from code.google.com/p/acfs

adfgcolors

Package to easily use common ADF&G colors schemes in ggplot2

adolescent

A prospective longitudinal study of the vaginal microbiome in perimenarcheal girls

albert-bioinformatics-scripts

alimintest

AlimIntest source code

allespaletti

Useful Color Palettes for ggplot2

alps-mm10

AnaLysis routines for ePigenomicS data.

amassing

Amassing step by step

ananse

Prediction of key transcription factors in cell fate determination using enhancer networks. See full ANANSE documentation for detailed installation instructions and usage examples.

anno

Anno is a variant annotation tool

annocript

Annocript is a pipeline for the annotation of de-novo generated transcriptomes. It executes BLAST analysis with UniProt, NCBI Conserved Domain Database and Nucleotide divisions, Gene Ontology, UniPathways and the Enzyme Commission. It gives information about the longest ORF (using DNA2PEP) and non-coding potential of the sequences (using Portrait). A final heuristic makes Annocript able to identify putative long non-coding RNAs among your transcripts.

annotated_deep_learning_paper_implementations

🧑‍🏫 60 Implementations/tutorials of deep learning papers with side-by-side notes 📝; including transformers (original, xl, switch, feedback, vit, ...), optimizers (adam, adabelief, sophia, ...), gans(cyclegan, stylegan2, ...), 🎮 reinforcement learning (ppo, dqn), capsnet, distillation, ... 🧠

apa

apa: research platform for the study of alternative polyadenylation, expressRNA.org

apalyzer

APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is the comparison of sequencing reads in regions demarcated by high-quality polyadenylation sites (PASs) annotated in the PolyA_DB database (https://exon.apps.wistar.org/PolyA_DB/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.

arq5x.github.io

art-r-translation

《R语言编程艺术》翻译项目文件

artdeco

asarp

ASARP: the pipeline for accurate identification of allele-specific alternative mRNA processing

aspirer

atac-pipe

Analysis pipeline for ATAC-seq Data

atac-seq

Analysis of atac-seq data in differentiated iPSC