swMATH28860MaRDI QIDQ40574FDOQ40574
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Official website: http://www.ccb.jhu.edu/software/hisat/index.shtml
Source code repository: https://github.com/DaehwanKimLab/hisat
Cited In (71)
- Graphs cannot be indexed in polynomial time for sub-quadratic time string matching, unless SETH fails
- Eulertigs
- SPUMONI
- pufferfish2
- PuffAligner
- MONI
- SSP
- Indexing variation graphs
- BrownieAligner
- IsoLasso
- ShoRAH
- Mason
- BiocManager
- ARSyN
- GATK
- Samtools
- FastQC
- Trimmomatic
- sva
- gage
- clusterProfiler
- Bowtie 2
- Tabix
- QuasR
- GenomicRanges
- systemPipeR
- SNVMix
- deBGA
- SplitMEM
- vg
- eSNV-detect
- HaploReg
- MapSplice
- MultiQC
- PALMapper
- ReQON
- Salmon
- SomaticSniper
- Strelka
- topGO
- Wileup
- ZOOM
- RNASeqReadSimulator
- LoRDEC
- CLIIQ
- Linear time construction of indexable elastic founder graphs
- BiSeq
- compGenomRData
- deFuse
- genomation
- gmapR
- GISTIC2.0
- MethylSeekR
- normr
- ODIN
- Rbowtie
- rGADEM
- rGREAT
- Trim Galore
- AStarix
- CIDANE
- MFD-ILP
- MultiTrans
- hybridSPAdes
- RefShannon
- Scallop2
- StringTie
- intePareto
- Analysis of expression profile and gene variation via development of methods for next generation sequencing data
- Computational genomics with R. With the assistance of Verdan Franke, Bora Uyar and Jonathan Ronen
- Fast, flexible, and exact minimum flow decompositions via ILP
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