Pinned Repositories
albert-bioinformatics-scripts
bbcfutils
Collection of stand-alone tools
bedSeq
A program to efficiently append sequences to bed files
cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
gMiner
Manuiplations and statistics on genomic data
GRO-seq
GROSeq, RNASeq, Exome Sequencing.
PIntron
A novel pipeline for gene-structure prediction based on spliced alignment of transcript sequences (ESTs and mRNAs) against a genomic sequence
pytools
some general useful python tools for genomics
RNA-seq-Graph
RNA-seq Graph Builder is a method to reconstruct the Isoform Graph of a gene from RNA-seq data, without the genome information, where such a graph is a representation of the variants of alternative splicing of the gene structure.
RNASeqMappingScripts3
hjanime's Repositories
hjanime/101
All learning projects
hjanime/analysis_guides
10x Genomics analysis guides files
hjanime/AP1_Multi_Chemopersistence_TNBC
AP-1 drives a recurrent drug persister state in triple negative breast cancer
hjanime/appliedgenomics2024
Materials for EN.601.449/649 Computational Genomics: Applied Comparative Genomics
hjanime/BASAL
Base-conversion Sequencing Aligner
hjanime/baymobil
hjanime/BSgenome.Arabidopsis.thaliana.TAIR10
hjanime/chai-lab
Chai-1, SOTA model for biomolecular structure prediction
hjanime/dominatR
Feature Dominance Data Visualization
hjanime/EvolvePro
This is the offical codebase to reproduce and use EVOLVEpro, a model for in silico directed evolution of protein activities using few-shot active learning.
hjanime/flextable
table farming
hjanime/iSTOP
hjanime/liam
hjanime/m6A-SACseq
🧪 Optimized protocol for m6A-SAC-seq
hjanime/maser
Mapping Alternative Splicing Events to pRoteins
hjanime/ML_epigenetic_features_glioblastoma
hjanime/NGS-scripts
Scripts for next generation sequencing analyses
hjanime/omicverse
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
hjanime/PAL-AI
An integrated neural network that predicts poly(A) tai-length changes during oocyte maturation
hjanime/proteoformer
Integration ribosome profiling - mass spectrometry
hjanime/ProTrek
ProTrek: Navigating the Protein Universe through Tri-Modal Contrastive Learning
hjanime/R2easyR
Facilitates Mapping Experimental RNA Reactivity Data to Secondary Structures Drawn with R2R
hjanime/RiboDoc
Docker based tool for ribosome profiling (RiboSeq) analysis
hjanime/RiboMetric
A command-line utility for the generation of comprehensive reports on ribosome profiling (Ribo-Seq) dataset quality
hjanime/RiboParser
hjanime/ribotish
Ribo-seq TIS Hunter, predicting translation initiation sites and ORFs using riboseq data
hjanime/scplotter
scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy and efficient way.
hjanime/ShortStack
ShortStack: Comprehensive annotation and quantification of small RNA genes
hjanime/snakepipes
Customizable workflows based on snakemake and python for the analysis of NGS data
hjanime/snpeffToMaf
Converts snpeff annotations into MAF