Alternatives and similar repositories for SoloTE

Users that are interested in SoloTE are comparing it to the libraries listed below

• mcgilldinglab / MATES
  A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data
  ☆32Updated last month
• bodegalab / irescue
  Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq
  ☆21Updated 3 weeks ago
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆26Updated last year
• xryanglab / SCASL
  single-cell clustering based on alternative splicing landscapes
  ☆23Updated last year
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆62Updated 2 months ago
• lrylaarsdam / amethyst
  A comprehensive toolkit for single-cell methylation sequencing data analysis
  ☆30Updated this week
• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆63Updated 2 years ago
• crickbabs / DRB_TT-seq
  Scripts for the analysis of TT-seq and DRB/TT-seq data.
  ☆11Updated 5 years ago
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆73Updated last year
• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆118Updated last year
• ElkonLab / scAPA
  This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.
  ☆24Updated 4 years ago
• wenweixiong / MARVEL
  ☆53Updated last year
• lkmklsmn / MitoTrace
  ☆18Updated last year
• cxzhu / Paired-Tag
  Analysis of Paired-Tag datasets
  ☆43Updated last year
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆39Updated 2 months ago
• Hoffmann-Lab / TEdetectionEvaluation
  Tool comparison for detecting differentially expressed individual transposable elements
  ☆11Updated 4 years ago
• atarashansky / SAMap
  SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
  ☆87Updated 2 weeks ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆62Updated 4 years ago
• YaqiangCao / cLoops2
  Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
  ☆52Updated 6 months ago
• 3UTR / 3aQTL-pipe
  Mapping 3′UTR alternative polyadenylation quantitative trait loci through population-scale transcriptomic and genomic data
  ☆12Updated 2 years ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆56Updated 4 years ago
• satijalab / PASTA
  ☆21Updated last year
• UcarLab / AMULET
  A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.
  ☆31Updated 3 years ago
• ren-lab / hic-pipeline
  ☆25Updated 4 years ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆85Updated last year
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆76Updated 4 years ago
• UPSUTER / GEMLI
  ☆32Updated 11 months ago
• ucsffrancislab / REdiscoverTE
  ☆12Updated last year
• shiquan / PISA
  A collection of tools to process single-cell omics datasets.
  ☆51Updated 7 months ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆61Updated 3 months ago