Alternatives and similar repositories for cld

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

• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• nellore / intropolis
  Exon-exon splice junctions across SRA
  ☆42Updated 4 years ago
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆30Updated 6 years ago
• biocore-ntnu / epic
  (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER
  ☆31Updated 7 years ago
• slowkow / picardmetrics
  Run Picard on BAM files and collate 90 metrics into one file.
  ☆40Updated 8 years ago
• ChristopherWilks / snaptron
  fast webservices based query tool for large sets of genomic features
  ☆25Updated 8 months ago
• brwnj / umitools
  Tools to handle reads sequenced with unique molecular identifiers (UMIs).
  ☆30Updated 8 years ago
• pachterlab / kallisto_paper_analysis
  Analysis from kallisto paper
  ☆32Updated 9 years ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• pmelsted / pizzly
  Fast fusion detection using kallisto
  ☆79Updated 7 months ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆30Updated last year
• ccgd-profile / BreaKmer
  A method to identify structural variation from sequencing data in target regions
  ☆32Updated 5 years ago
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆30Updated 5 years ago
• gt1 / biobambam
  Tools for bam file processing
  ☆55Updated 10 years ago
• aidenlab / JuiceboxLegacy
  OLD REPOSITORY - Go to
  ☆31Updated 7 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• IARCbioinfo / needlestack
  Multi-sample somatic variant caller
  ☆52Updated 3 years ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 9 years ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆85Updated 7 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆55Updated 5 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated 2 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆30Updated 4 years ago
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆84Updated 4 years ago
• guigolab / grape-nf
  An automated RNA-seq pipeline using Nextflow
  ☆37Updated last month
• COMBINE-lab / wasabi
  Prepare Sailfish and Salmon output for downstream analysis
  ☆42Updated 6 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 6 years ago
• CGATOxford / cgat
  Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
  ☆124Updated 7 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆43Updated 4 years ago