Alternatives and similar repositories for single-cell-nanopore

Users that are interested in single-cell-nanopore are comparing it to the libraries listed below

• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 9 months ago
• SziKayLeung / Whole_Transcriptome_Paper
  ☆18Updated last year
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆45Updated 3 years ago
• LappalainenLab / lorals
  ☆38Updated 2 years ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆62Updated 7 months ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆52Updated 3 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• Xinglab / espresso
  ☆64Updated 3 months ago
• pk7zuva / Circle_finder
  Micro DNA identification
  ☆23Updated 4 years ago
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆15Updated last year
• mortazavilab / lapa
  Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.
  ☆34Updated 2 years ago
• Xinglab / rMATS-long
  ☆34Updated last month
• broadinstitute / longbow
  Annotation and segmentation of MAS-seq data
  ☆20Updated 2 years ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆64Updated 8 months ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 4 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• novoalab / m6ABasecaller
  An m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedo…
  ☆18Updated 4 months ago
• rvolden / Mandalorion-Episode-II
  Version II of Mandalorion
  ☆32Updated 6 years ago
• TrinityCTAT / CTAT-LR-fusion
  fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector
  ☆23Updated 3 months ago
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 5 years ago
• novoalab / Nano3P_Seq
  Nanopore 3' end-capture sequencing (Begik et al., bioRxiv 2021)
  ☆14Updated 6 months ago
• tgen / bisbee
  alternative splicing analysis pipeline
  ☆20Updated 4 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆55Updated last year
• ucagenomix / sicelore
  Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…
  ☆78Updated 2 years ago
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated last year
• Xinglab / SEASTAR
  SEASTAR - Systematic Evaluation of Alternative transcription STArt site in RNA
  ☆14Updated 7 years ago
• weir12 / DENA
  Deep learning model used to detect RNA m6a with read level based on the Nanopore direct RNA data.
  ☆22Updated 3 years ago
• XiDsLab / TAGET
  ☆20Updated 3 years ago