Alternatives and similar repositories for CHALM

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

• sunnyisgalaxy / moabs
  A comprehensive, accurate and efficient solution for analysis of large scale base-resolution DNA methylation data
  ☆17Updated 4 years ago
• dekkerlab / matrix_paper
  Scripts and notebooks used in Akgol Oksuz et al. paper
  ☆11Updated 4 years ago
• kdkorthauer / cfMeDIPseq-RCC
  Analyses for Manuscript "Sensitive detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes"
  ☆12Updated 5 years ago
• parklab / SCAN2
  SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)
  ☆17Updated 4 months ago
• deWitLab / GENOVA
  GENome Organisation Visual Analytics
  ☆15Updated 4 years ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• VanLoo-lab / CAMDAC
  ☆11Updated 3 months ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆20Updated last week
• MarioniLab / CELLOseq
  Transposable element expression at unique loci in single cells with CELLO-seq
  ☆11Updated last year
• amf71 / ECLIPSE
  ☆11Updated 2 years 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
• timplab / nanoNOMe
  nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis
  ☆20Updated 3 years ago
• shahcompbio / wgs
  Whole genome workflows
  ☆12Updated last year
• bioinfo-biols / Code_for_circSC
  Analysis pipeline for our circSC manuscript
  ☆14Updated 3 years ago
• NYU-BFX / RNA-Seq_Standard
  ☆11Updated 7 years ago
• deWitLab / peakC
  Peak calling for 4C data
  ☆13Updated 7 years ago
• cruk-mi / mesa
  mesa package for Methylation Enrichment Sequencing Analysis
  ☆14Updated last month
• cyang235 / smooth-seq
  A pipeline for Smooth-seq data analysis.
  ☆10Updated 4 years ago
• yupenghe / encode_dna_dynamics
  Custom scripts used in "Spatiotemporal DNA Methylome Dynamics of the Developing Mammalian Fetus"
  ☆11Updated 5 years ago
• navinlabcode / ACT_paper
  Scripts used for the ACT paper
  ☆12Updated 4 years ago
• mirnylab / hiclib-legacy
  A legacy repository. Was replaced by distiller, cooler, and cooltools.
  ☆21Updated 5 years ago
• MarioniLab / sarlacc
  The R package "sarlacc" contains a pipeline to analyse nanopore sequencing data. It trims adapter sequences, retrieves optional UMI's, cl…
  ☆15Updated 6 years ago
• sartorlab / methylSig
  R package for DNA methylation analysis
  ☆19Updated last year
• LappalainenLab / lorals_paper_code
  ☆27Updated 3 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated last year
• daewoooo / StrandPhaseR
  R Package for phasing of single cell Strand-seq data
  ☆10Updated 11 months ago
• jkimlab / msPIPE
  ☆20Updated 2 years ago
• comprna / ORQAS
  ORF Quantification pipeline for Alternative Splicing
  ☆16Updated 4 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• scoutzxb / CscoreTool
  ☆22Updated 5 years ago