https://github.com/ship561/hts-exploration
Tip revision: f8df857b16bd813a881c68669053b85d5f9fbc29 authored by shermin on 04 January 2017, 19:23:06 UTC
Commit prior to submitting paper. Should be working. Need to add function to take in fasta/fastq data and calculate NCM enrichment.
Commit prior to submitting paper. Should be working. Need to add function to take in fasta/fastq data and calculate NCM enrichment.
Tip revision: f8df857
project.clj
(defproject hts-exploration "0.1.0-SNAPSHOT"
:description "FIXME: write description"
:url "http://example.com/FIXME"
:license {:name "Eclipse Public License"
:url "http://www.eclipse.org/legal/epl-v10.html"}
:repl-options {:port 4011}
:profiles {:babs {:jvm-opts ["-Xmx10g"]}
:kitia {:jvm-opts ["-Xmx1g"]}}
:plugins [[cider/cider-nrepl "0.13.0"]
]
:global-vars {*print-length* 100}
:dependencies [[org.clojure/clojure "1.8.0"]
[org.clojure/tools.nrepl "0.2.12"]
[org.clojure/core.async "0.2.385"]
[org.clojure/core.match "0.3.0-alpha4"]
[mlabs.jars/clojure-contrib "1.2.0-mlab"]
[medley "0.7.0"]
[me.raynes/fs "1.4.4"]
[slingshot "0.12.1"]
;; math stuff
[org.clojure/math.numeric-tower "0.0.4"]
[net.mikera/core.matrix "0.42.0"]
;; shell stuff
[me.raynes/conch "0.8.0"]
[clj-shell "0.1.0"]
;;; dealing with nested stuff
[com.rpl/specter "0.7.1"]
[instar "1.0.10"]
;; exporting data should figure out one that works
[org.clojure/data.csv "0.1.3"]
[clojure-csv/clojure-csv "2.0.1"]
[semantic-csv "0.1.0"]; handle csvs in a better way
[cheshire "5.5.0"]; json
[instaparse "1.4.1"]
[org.clojure/java.jdbc "0.3.3"]
[mysql/mysql-connector-java "5.1.18"]
[cascalog "2.0.0"]
[org.apache.hadoop/hadoop-core "1.1.2"]
;;file reading in parallel
[iota "1.1.1"]
[foldable-seq "0.2"]
;;pdf manipulation
[clj-pdf "1.11.20"]
[camelot "0.2.0"]
;;graph lib
[aysylu/loom "0.5.0"]
;;graph visualization
[rhizome "0.2.1"]
])
