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Inhalt nach Stichwort
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- Flye is a de novo assembler for single molecule sequencing reads
(https://github.com/fenderglass/Flye) - SMARTdenovo is an ultra-fast de novo assembler using long noisy reads
(https://github.com/ruanjue/smartdenovo) - bwa - Burrows-Wheeler Alignment Tool for mapping low-divergent sequences against a large reference genome
(http://bio-bwa.sourceforge.net/) - FREEC is a tool for the detection of copy-number changes and allelic imbalances using deep-sequencing data
(https://docs.hpc.qmul.ac.uk/apps/bio/freec/) - MergeMap constructs accurate consensus genetic maps from a set of individual genetic maps using DAGs
(http://www.oligospawn.org/mgmap/) - Canu is a hierarchical assembly pipeline for high-noise single-molecule sequencing
(https://github.com/marbl/canu) - Racon is a genomic consensus module to correct raw contigs generated by rapid assembly methods
(https://github.com/lbcb-sci/racon) - Unicycler is an assembly pipeline for bacterial genomes
(https://github.com/rrwick/Unicycler) - PanGenie - Genotyping based on k-mers and pangenome graphs
(https://bitbucket.org/jana_ebler/pangenie/src/master/) - Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA
(https://github.com/gmarcais/Jellyfish) - Long Ranger is a set of analysis pipelines that processes Chromium sequencing output to align reads
(https://support.10xgenomics.com/genome-exome/software/pipelines/latest/what-is-long-ranger) - Salmon is a tool for quantifying the expression of transcripts using RNA-seq data
(https://combine-lab.github.io/salmon/) - HOME (histogram of methylation) is a python package for differential methylation region (DMR) identification
(https://github.com/ListerLab/HOME) - MUMmer is a versatile alignment tool for DNA and protein sequences
(https://github.com/mummer4/mummer) AlphaFold is a package for highly accurate protein structure predictions
(https://github.com/deepmind/alphafold)
