amardeep-hub

amardeep-hub's Stars

• GoekeLab/m6anet

  Detection of m6A from direct RNA-Seq data

  Language:Python10419

• ZarnackGroup/m6Aboost

  Language:R21

• adityaradhakrishnan/tRNA-Viz

  A small program to visualize tRNA abundance and modification in organisms.

  Language:PostScript2

• kimmmli/RNADSN

  Code for paper RNADSN: Transfer-Learning 5-Methyluridine (m5U) Modification on mRNAs from Common Features of tRNA.

  Language:Python1

• yuanpengX/MASS

  M6A predictor for multiple SpecieS (MASS): Modelling Multi-species RNA Modification through Multi-task Curriculum Learning

  Language:Python31

• XiaLabBioinformatics/Database_hRMQTL

  hRMQTL: the human QTL-associated RNA modifications database

  Language:Python1

• btoro/RNA_PTM_Classifier

  Classify and test samples by their RNA post-transcriptional modification profiles.

  Language:Python1

• monimaanam/Modomics_Decoder

  Annotates modomics RNA sequences for easy viewing of RNA modifications and nucleotide positions.

  Language:Python1

• cjgunnar/dreem

  Modification of the DREEM RNA MaPseq clustered analysis

  Language:Python1

• shadowdeng1994/pseudoU-BIDseq

  BID-seq for detecing pseudouridine modification on RNA

  1

• Leon-Yu0320/Nanopore-RNA-sequencing

  The repo contains computaional pipelines for Nanopre-derieved RNA modification detection

  Language:Shell1

• FelixErnst/RNAmodR.AlkAnilineSeq

  :package: RNAmodR.AlkAnilineSeq: detection of m7G, m3C and D modification by AlkAnilineSeq

  Language:R2

• daniel235/RNAmodificationClassifier

  classifier to detect the pseudouridine modification in a RNA sequence using nanopore sequencer data.

  Language:Python1

• Justinmchan408/RNAModificationDetectionNanoporeSeq

  Detecting RNA modifications from Nanopore Sequencing using ML techniques. Analyzing the output from Nanopolish's eventalign to be able to differentiate 5mers that contain an RNA modification

  Language:Jupyter Notebook1

• FelixErnst/RNAmodR.ML

  :package: RNAmodR.ML: machine learning for detection of post-transcriptional RNA modifications

  Language:R1

• jsleavit/RNAwriters

  pipeline for RNA modification enzyme discovery

  Language:Python1

• pk7zuva/sRNA_modification_finder

  A pipeline to identify and quantify base modification in small RNA sequncing data.

  1

• lrslab/DRS_vRNA_modification_content

  Scripts used in our paper (Utilization of Nanopore Direct RNA Sequencing to analyze intracellular viral RNA modifications of the Sindbis virus)

  Language:Python2

• jfallmann/tRNA_ngs_mod_map_call_galaxy

  Tool collection for identification of tRNA modifications from NGS data galaxy workflow

  31

• MSARN/NucleosID

  Nucleos'ID is a Python-based software to identify post-transcriptional modifications of RNA at the nucleoside level.

  Language:Python22

• snotjanu/OutMod-RnaSeq

  Outlier Modification for RNA-Seq Data

  Language:R1

• bce99/m6A-RNA-Modification-Prediction

  :dna: A prediction pipeline of m6A RNA modifications on all SG-NEx direct RNA-Seq samples using Nextflow and FeedForward Neural Network

  Language:Jupyter Notebook1

• novoalab/basecalling_models

  Benchmarked base calling models for nanopore sequencing providing super high accuracy and improved RNA modification detection

  Language:R5

• ktan8/ModTect

  ModTect is a tool for identifying sites of RNA modifications that disrupts base-pairing using typical RNA-sequencing datasets

  Language:Python41

• vd4mmind/RNASeq

  This project consists of various scripts that were used for analysis of RNA-Seq data. The scripts are not customised but basal level which one can use to fit into their suitable experimental design post modifications.

  Language:Shell51

• guangzhaocs/SegPore

  SegPore is a software to segment the raw Nanopore direct RNA sequence, and to estimate various RNA modifications and secondary folding structures.

  Language:Python81

• adbailey4/rna_modification_detection

  rna_modification_detection

  Language:Jupyter Notebook1

• novoalab/m6ABasecaller

  An m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedor, Pryszcz et al., BioRxiv 2023)

  Language:Jupyter Notebook141

• FelixErnst/RNAmodR

  :package: RNAmodR: detection of post-transcriptional RNA modifications based on HTS data

  Language:R3

• Bio-protocol/Pipeline_for_Identification_m6A_AS_and_APA_with_Long_Read

  An Analysis Pipeline for Identification of RNA Modification, Alternative Splicing and Polyadenylation Using Third-Generation Sequencing

  Language:Shell32