Alternatives and similar repositories for shmlast

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

• COMBINE-lab / RapClust
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆31Updated last year
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• bcthomas / pullseq
  Utility program for extracting sequences from a fasta/fastq file
  ☆35Updated 8 months ago
• vice87 / gam-ngs
  Genomic Assemblies Merger for NGS
  ☆26Updated last year
• mthon / mirlo
  A set of scripts to help automate the construction of data sets for multi-gene phylogenetic analyses.
  ☆13Updated 6 years ago
• dkoslicki / MetaPalette
  Metagenomic profiling and phylogenetic distances via common kmers
  ☆42Updated 4 years ago
• nickloman / poredb
  ☆18Updated 8 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• scwatts / genome_painter
  Paint genomes with taxa-specific k-mer probabilities
  ☆15Updated 3 years ago
• paudano / kestrel
  Mapping-free variant caller for short-read Illumina data
  ☆19Updated 5 years ago
• ncbi-gpipe / pgap
  (Obsolete) NCBI Prokaryotic Genome Annotation Pipeline. New site:
  ☆16Updated 7 years ago
• blahah / assemblotron
  Automated optimisation of de-novo transcriptome assembly
  ☆25Updated 9 years ago
• kdm9 / axe
  Rapid competitive read demulitplexer. Made with tries.
  ☆23Updated 4 months ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated last month
• ansariazim / treeBreaker
  Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the tree
  ☆25Updated 7 years ago
• mpdunne / orthofiller
  OrthoFiller: Identifying missing annotations for evolutionarily conserved genes.
  ☆23Updated 2 years ago
• karel-brinda / samsift
  SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.
  ☆23Updated this week
• mariokostelac / ra-integrate
  DNA assembler developed on FER (Croatia), RBI (Croatia) and GIS (Singapore)
  ☆18Updated 9 years ago
• NathanWhelan / automate-PAML-codeml
  ☆10Updated 7 years ago
• mreppell / Karp
  Accurate and fast taxonomic classification using pseudoaligning
  ☆21Updated 8 years ago
• EvdH0 / poreFUME
  Analysis pipeline for functional metagenomic sequencing data obtained using nanopore sequencing
  ☆12Updated 8 years ago
• xa6xa6 / metaOthello
  ☆15Updated 7 years ago
• Ecogenomics / BamM
  Metagenomics-focused BAM file manipulation
  ☆15Updated 6 years ago
• kevlar-dev / kevlar
  Reference-free variant discovery in large eukaryotic genomes
  ☆41Updated 4 years ago
• sanger-pathogens / panito
  Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment
  ☆16Updated 6 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆46Updated 6 years ago
• svm-zhang / AGOUTI
  Annotated Genome Optimization Using Transcriptome Information
  ☆20Updated 5 years ago
• cboursnell / transfuse
  Merge transcriptome assemblies
  ☆31Updated 8 years ago
• mikolmogorov / pbclip
  A simple tool to fix PacBio fasta/q that was not properly split into subreads
  ☆15Updated 4 years ago
• jfass / apc
  (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
  ☆11Updated 4 years ago