Pinned Repositories
awesome-nanopore
A curated list of awesome nanopore analysis tools.
C3POa
Computational pipeline for calling consensi on R2C2 nanopore data
duplex-tools
Splitting of sequence reads by internal adapter sequence search
fastq-filter
Quality and length filter for FastQ data
HiPore-C
We developed a protocol of in situ high throughput multi-way contact long read Pore-C sequencing (in situ HiPore-C), a strategy that integrated multi-fragment ligates preparation with third-generation sequencing technology. With HiPore-C approach, we could explore higher-order chromatin interaction genome-widely.
labjournal
Laboratory journal of Emil
m6anet
Mandalorion-Episode-II
Version II of Mandalorion
master_of_pores
Nextflow pipeline for analysis of direct RNA Nanopore reads
megalodon
callumparr's Repositories
callumparr/fastq-filter
Quality and length filter for FastQ data
callumparr/ont_tutorial_transcriptome
A bioinformatics tutorial demonstrating the application of long read cDNA sequence data for the identification of differentially expressed genes and transcripts
callumparr/awesome-nanopore
A curated list of awesome nanopore analysis tools.
callumparr/C3POa
Computational pipeline for calling consensi on R2C2 nanopore data
callumparr/duplex-tools
Splitting of sequence reads by internal adapter sequence search
callumparr/HiPore-C
We developed a protocol of in situ high throughput multi-way contact long read Pore-C sequencing (in situ HiPore-C), a strategy that integrated multi-fragment ligates preparation with third-generation sequencing technology. With HiPore-C approach, we could explore higher-order chromatin interaction genome-widely.
callumparr/labjournal
Laboratory journal of Emil
callumparr/m6anet
callumparr/Mandalorion-Episode-II
Version II of Mandalorion
callumparr/master_of_pores
Nextflow pipeline for analysis of direct RNA Nanopore reads
callumparr/megalodon
callumparr/NA12878
Data and analysis for NA12878 genome on nanopore
callumparr/NanoCount
EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
callumparr/notebooks
callumparr/ont_tutorial_cdna_deseq2
bioinformatics tutorial demonstrating a simple workflow for cDNA based differential gene expression using minimap2, Rsubread and DESeq2
callumparr/Penguin
Penguin: A Tool for Predicting Pseudouridine Sites in Direct RNA Nanopore Sequencing Data
callumparr/pipeline-polya-ng
Pipeline for calling poly(A) tail lengths from nanopore direct RNA data using nanopolish
callumparr/pipeline-transcriptome-de
Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
callumparr/Pore-C-Snakemake
callumparr/Porechop
adapter trimmer for Oxford Nanopore reads
callumparr/pychopper
A tool to identify full length cDNA reads
callumparr/rageseq
RAGE-seq scripts
callumparr/rampart
Read Assignment, Mapping, and Phylogenetic Analysis in Real Time
callumparr/random
callumparr/rnaseqDTU
RNA-seq workflow for differential transcript usage following Salmon quantification
callumparr/spleeter
Deezer source separation library including pretrained models.
callumparr/SquiggleKit
SquiggleKit: A toolkit for manipulating nanopore signal data
callumparr/taiyaki
Training models for basecalling Oxford Nanopore reads
callumparr/TALON
Technology agnostic long read analysis pipeline for transcriptomes
callumparr/TALON-paper-2020
References and analyses for updated TALON paper