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* academic/cufflinks: Update DEPS. Petar Petrov7 days2-5/+5
* academic/samtools-legacy: Fix path. Petar Petrov7 days1-6/+6
* academic/ngspice: Updated for version 30. R. S. Ananda Murthy7 days2-10/+10
* academic/octave: Updated for version 4.4.1. Kyle Guinn11 days4-16/+55
* academic/arpack-ng: Updated for version 3.6.3. Kyle Guinn11 days2-6/+9
* academic/qrupdate: Update URLs and patches. Kyle Guinn11 days3-62/+61
* academic/spqr: Updated for version 2.0.9. Kyle Guinn11 days3-82/+89
* academic/umfpack: Updated for version 5.7.8. Kyle Guinn11 days3-80/+87
* academic/klu: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/cholmod: Updated for version 3.0.13. Kyle Guinn11 days3-81/+88
* academic/rbio: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/btf: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/ldl: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/cxsparse: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/csparse: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/ccolamd: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/colamd: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/camd: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/amd: Updated for SuiteSparse 5.4.0. Kyle Guinn11 days3-72/+79
* academic/suitesparseconfig: Updated for version 5.4.0. Kyle Guinn11 days3-74/+81
* academic/pari: Updated for version 2.11.1. Joachim Kruth11 days3-9/+7
* academic/samtools: Updated for version 1.9 + new maintainer. Rob van Nues11 days5-97/+69
* academic/bcftools: Added (BCF calling tools). Rob van Nues11 days4-0/+146
* academic/bowtie2: Updated for version 2.3.4.3 + new maintainer. Rob van Nues11 days4-25/+27
* academic/ngspice: Updated for version 29. R. S. Ananda Murthy11 days2-6/+6
* academic/cryptominisat: Fix MD5SUM. Willy Sudiarto Raharjo2018-12-261-1/+1
* academic/kraken: Added (Assigning Taxonomic Labels). Petar Petrov2018-12-255-0/+156
* academic/jellyfish_k-mer: Added (k-mers counting tools). Petar Petrov2018-12-254-0/+144
* academic/ugene: Updated for version 1.31.1. Petar Petrov2018-12-244-11/+15
* academic/trimmomatic: Added (Trimming Tool). Petar Petrov2018-12-245-0/+138
* academic/ncbi-rmblastn: Update DEP. Petar Petrov2018-12-241-1/+1
* academic/ncbi-blast-plus: Removed (Use ncbi-blast+). Willy Sudiarto Raharjo2018-12-245-178/+0
* academic/ImageJ: Removed (Use fiji). Willy Sudiarto Raharjo2018-12-248-632/+0
* academic/ij-plugins-UCSD: Removed (Use fiji). Willy Sudiarto Raharjo2018-12-244-97/+0
* academic/ij-plugins-LOCI: Removed (Use fiji). Willy Sudiarto Raharjo2018-12-244-100/+0
* academic/fiji: Added (ImageJ Distribution). Petar Petrov2018-12-248-0/+234
* academic/wehi-weasel: Updated for version 3.5.0.17. Petar Petrov2018-12-242-6/+6
* academic/vcftools: Updated for version 0.1.16. Petar Petrov2018-12-242-6/+6
* academic/hyphy: Updated for version 2.3.14. Petar Petrov2018-12-243-13/+20
* academic/stringtie: Added (Assembler of RNA-Seq alignments). Petar Petrov2018-12-244-0/+131
* academic/tabix-legacy: Added (Generic indexer). Petar Petrov2018-12-244-0/+148
* academic/spades: Updated for version 3.13.0. Petar Petrov2018-12-242-5/+5
* academic/samtools-legacy: Added (Sequence Alignment/Map Tools). Petar Petrov2018-12-245-0/+205
* academic/ncbi-blast+: Added (BLAST+ Command Line Applications). Petar Petrov2018-12-245-0/+189
* academic/ncbi-blast: Update script. Petar Petrov2018-12-243-19/+19
* academic/megax: Updated for version 10.0.5_1. Petar Petrov2018-12-242-8/+8
* academic/mafft: Updated for version 7.407. Petar Petrov2018-12-242-4/+8
* academic/diamond: Added (A sequence aligner). Petar Petrov2018-12-245-0/+161
* academic/clark-ugene: Added (supervised sequence classification). Petar Petrov2018-12-244-0/+171
* academic/bppsuite: Updated for version 2.4.1. Petar Petrov2018-12-242-5/+5