562337bb46e3a64153ebf503bf2599e3 *CITATION
61a4f9dccc45cdd02fbcd141e7fd2515 *DESCRIPTION
a396bdac2f2aed2457de7372279e6f6d *INDEX
79688fa3d7529e30d3f14daaeca6b0ba *Meta/Rd.rds
77a30dbd9a48297ae6e6ef2194a95267 *Meta/features.rds
41bd172579cbf69b4cbd6f64cbfc9e06 *Meta/hsearch.rds
08fe4cd3f36a4a0a57aedde4f06bc5b9 *Meta/links.rds
cf984b1901929fac932c545b7f88ea7a *Meta/nsInfo.rds
f332c4c626ae484c34031a7f612fca41 *Meta/package.rds
04dd930d4267eb7cfc1ec9f243e51607 *Meta/vignette.rds
006e12f4e5da10375d70cbff63d44978 *NAMESPACE
7c94e345b80d4eac2181c928b71e5ff3 *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/CRISPRseek
65b322547c43c59114ce38e40ae719ff *R/CRISPRseek.rdb
1f5c7d1415233a5038c704f33f434e28 *R/CRISPRseek.rdx
584e1c27e770fcabac6a795218fa6c92 *doc/CRISPRseek.R
e40019b39728bea9029245a265a7013c *doc/CRISPRseek.Rnw
ab36320bf0e4ade9d21695e0e96f5ac1 *doc/CRISPRseek.pdf
67f99e108af1d5f08ca5dc71409d465b *doc/index.html
40ca0fe9fcc50f22cf2eab911a0e162a *extdata/DoenchNBT2014.csv
3d9c1d814907b44782136daae9e164a7 *extdata/ForTestinguniqueREs.RData
27a8747ae646f5ee6d63b6608df2f306 *extdata/NEBenzymes.fa
75351020e8e1357af78ca004f1c93349 *extdata/NatureBiot2016SuppTable19DoenchRoot.csv
79be1f4fb1d484990d4a9353ef1a54a3 *extdata/RIPK1stop.fa
bf2e474e06195900b0dce697bb85324b *extdata/Rule_Set_2_scoring_v1/README_v1.pdf
d41d8cd98f00b204e9800998ecf8427e *extdata/Rule_Set_2_scoring_v1/analysis/X
d41d8cd98f00b204e9800998ecf8427e *extdata/Rule_Set_2_scoring_v1/analysis/features/__init__.py
7c8c3c9940c588564f2b4554dc01432e *extdata/Rule_Set_2_scoring_v1/analysis/features/__init__.pyc
5be3898b4739c9073b5ad0b81c616b6d *extdata/Rule_Set_2_scoring_v1/analysis/features/featurization.py
d6c9b14bcae75af5416ca3eda653d9e6 *extdata/Rule_Set_2_scoring_v1/analysis/features/featurization.pyc
1672b749fb34c1f0adb3b7c51e08942b *extdata/Rule_Set_2_scoring_v1/analysis/features/microhomology.py
4dc12df638a063e067cdf3b6726f8411 *extdata/Rule_Set_2_scoring_v1/analysis/features/microhomology.pyc
4ab77a525025cdada8235f0a5e9a05fb *extdata/Rule_Set_2_scoring_v1/analysis/load_data.py
505e26fefe68337f68342df17e78380f *extdata/Rule_Set_2_scoring_v1/analysis/load_data.pyc
e535562ab0e3958b63fd14859fb5d9c2 *extdata/Rule_Set_2_scoring_v1/analysis/local_multiprocessing.py
5469533e6efc24f8d6db24124b9d2571 *extdata/Rule_Set_2_scoring_v1/analysis/local_multiprocessing.pyc
171f2eaa4f4c5cf5f729cc0af0f308cc *extdata/Rule_Set_2_scoring_v1/analysis/metrics.py
c3bb636123e1d9360942f40505f144a6 *extdata/Rule_Set_2_scoring_v1/analysis/metrics.pyc
f80b795b0d469e0f48d657eaca68cfce *extdata/Rule_Set_2_scoring_v1/analysis/model_comparison.py
28b347710564f15f86a8ef7f155fc6fc *extdata/Rule_Set_2_scoring_v1/analysis/model_comparison.pyc
7a9a685c295150b14bbe9c6fecf7f774 *extdata/Rule_Set_2_scoring_v1/analysis/models/DNN.py
66b555b692134ac892e0eaef180163a5 *extdata/Rule_Set_2_scoring_v1/analysis/models/DNN.pyc
99e7d48ab232e6ddda254dbe6a99729b *extdata/Rule_Set_2_scoring_v1/analysis/models/GP.py
d41d8cd98f00b204e9800998ecf8427e *extdata/Rule_Set_2_scoring_v1/analysis/models/__init__.py
159f4dc0d92146c01dbb19ca5c246a99 *extdata/Rule_Set_2_scoring_v1/analysis/models/__init__.pyc
2e9ffc526b695dddca1cc86ad658777b *extdata/Rule_Set_2_scoring_v1/analysis/models/baselines.py
a9c726f909c0eef92b072148e2559135 *extdata/Rule_Set_2_scoring_v1/analysis/models/ensembles.py
5bfe4bb3ab716865a9a812d9168b2b54 *extdata/Rule_Set_2_scoring_v1/analysis/models/ensembles.pyc
c615eb135ab0332d1668d813310c7f0d *extdata/Rule_Set_2_scoring_v1/analysis/models/gpy_ssk.py
daa746bb214bf849c473037c29e9531b *extdata/Rule_Set_2_scoring_v1/analysis/models/regression.py
d229a569fe724af7ef71195c1b9fb98b *extdata/Rule_Set_2_scoring_v1/analysis/models/regression.pyc
a34fb146735054247aa793144d6a22b5 *extdata/Rule_Set_2_scoring_v1/analysis/models/ssk.py
9e53bee74d1df10c20ff7653f2ed882b *extdata/Rule_Set_2_scoring_v1/analysis/predict.py
9ceda1cbfe500f70c9249a5681afaf49 *extdata/Rule_Set_2_scoring_v1/analysis/predict.pyc
98b051e0068246c72e00b831f89a732a *extdata/Rule_Set_2_scoring_v1/analysis/rs2_score_calculator.py
d41d8cd98f00b204e9800998ecf8427e *extdata/Rule_Set_2_scoring_v1/analysis/temp
95f09346eb97ee32df4f2b42d5c07e1f *extdata/Rule_Set_2_scoring_v1/analysis/testfile
5e87f60536e7f636d49a3ffe29d57363 *extdata/Rule_Set_2_scoring_v1/analysis/util.py
52a9013a8c8f1e9cb32b784da9a02f89 *extdata/Rule_Set_2_scoring_v1/analysis/util.pyc
b40fec67124a646f39038c5cfaea8dff *extdata/Rule_Set_2_scoring_v1/saved_models/V3_model_full.pickle
aedd510783865a39c73fe454148c7f68 *extdata/Rule_Set_2_scoring_v1/saved_models/V3_model_nopos.pickle
9e99a4998da29c0001658021a5163246 *extdata/T2.fa
652b596e1a437cd3070bc7afb64c423f *extdata/T2plus100OffTargets.bed
159422761901c39904cc3e89c6912703 *extdata/cpf1.fa
82331a32ca548f165d4309af09b6bb7b *extdata/gRNAProvidedSearch/OfftargetAnalysis.xls
dd28d1d41051ea0336d74e5efb12720b *extdata/gRNAProvidedSearch/REcutDetails.xls
2606d8c2793f3e8724aa0809a93e7b79 *extdata/gRNAProvidedSearch/Summary.xls
793bccad58fe016a62dbd732a880bfbd *extdata/gRNAProvidedSearch/gRNAsCRISPRseek.bed
b2d629c5aa9d1d4222383b3c4f7dfdb8 *extdata/gRNAProvidedSearchNOoffTarget/OfftargetAnalysis.xls
5ebcea0b6def026771d999eb235f474d *extdata/gRNAProvidedSearchNOoffTarget/Summary.xls
bb2c872180d615bc2a706c194fa650d6 *extdata/gRNAProvidedSearchNOoffTargetNoAnn/OfftargetAnalysis.xls
c5f4eb0ed8cb0f0236bebf312902dc49 *extdata/gRNAProvidedSearchNOoffTargetNoAnn/REcutDetails.xls
5ebcea0b6def026771d999eb235f474d *extdata/gRNAProvidedSearchNOoffTargetNoAnn/Summary.xls
087b72b30748ac17d7ce19ae7c679028 *extdata/gRNAProvidedSearchNOoffTargetNoAnn/gRNAsCRISPRseek.bed
e331ca983b0eca0d6ed1f8d9eb811534 *extdata/hits.txt
59f3774a3bd7f3c0493dd3844bc81e12 *extdata/inputseq.fa
98587f5579498517926268823b12bdad *extdata/pairedSearch/withRE/OfftargetAnalysis.xls
970bdd23900722433bea7f9fd0187f54 *extdata/pairedSearch/withRE/REcutDetails.xls
c0913d954b5da5adae22613f6d877b6d *extdata/pairedSearch/withRE/Summary.xls
f9f2bd5d46ff60d6c2c57a0bb36b25f7 *extdata/pairedSearch/withRE/pairedgRNAs.xls
98587f5579498517926268823b12bdad *extdata/pairedSearch/withoutRE/OfftargetAnalysis.xls
970bdd23900722433bea7f9fd0187f54 *extdata/pairedSearch/withoutRE/REcutDetails.xls
c0913d954b5da5adae22613f6d877b6d *extdata/pairedSearch/withoutRE/Summary.xls
f9f2bd5d46ff60d6c2c57a0bb36b25f7 *extdata/pairedSearch/withoutRE/pairedgRNAs.xls
d43302aca1ab1102d4eb796d49c8902a *extdata/recreateTestResults.R
92c09c9c3cf89a721b3dc843877b896f *extdata/rs362331C.fa
59de9309b8be7aca7ddf7afca89c3226 *extdata/rs362331T.fa
d8e904f3217ee661a6840af4ad718cff *extdata/seqs2.5prime.RData
0fd26c190f484e03de21ef14aed2d04c *extdata/seqs2.RData
a136deb5b5b0b6e6a26dfae9c5aa68d6 *extdata/seqs2CFD.RData
118462f42f3946779cb25165095f7e30 *extdata/test.bed
79d12e401109aa217909b3ab87ed8837 *extdata/testHsap_GATA1_ex2_gRNA1.fa
2cafc5e2ec848bdbb4a38cd9d6088200 *extdata/testMouse/NOTannotateExon/OfftargetAnalysis.xls
ce6b75c75db53d846168ddbdc2637bc4 *extdata/testMouse/NOTannotateExon/REcutDetails.xls
422d793f13b9d29590546d4d5221b7cd *extdata/testMouse/NOTannotateExon/RIPK1stopallgRNAs.fa
36771958927359cf79089919866b057d *extdata/testMouse/NOTannotateExon/Summary.xls
beff7a5dd7d6dcf1ae438ddda3315b46 *extdata/testMouse/NOTannotateExon/mRIPK1stop.gbk
126ee7da5eecc5314847a38964862e3f *extdata/testMouse/NOTannotateExon/pairedgRNAs.xls
0a1d173914d74649a932443e4cf38927 *extdata/testMouse/NOorgAnn/OfftargetAnalysis.xls
ce6b75c75db53d846168ddbdc2637bc4 *extdata/testMouse/NOorgAnn/REcutDetails.xls
422d793f13b9d29590546d4d5221b7cd *extdata/testMouse/NOorgAnn/RIPK1stopallgRNAs.fa
36771958927359cf79089919866b057d *extdata/testMouse/NOorgAnn/Summary.xls
beff7a5dd7d6dcf1ae438ddda3315b46 *extdata/testMouse/NOorgAnn/mRIPK1stop.gbk
126ee7da5eecc5314847a38964862e3f *extdata/testMouse/NOorgAnn/pairedgRNAs.xls
5119f100237b656ca64ec08096b0cd40 *extdata/testMouse/WithorgAnn/OfftargetAnalysis.xls
ce6b75c75db53d846168ddbdc2637bc4 *extdata/testMouse/WithorgAnn/REcutDetails.xls
422d793f13b9d29590546d4d5221b7cd *extdata/testMouse/WithorgAnn/RIPK1stopallgRNAs.fa
36771958927359cf79089919866b057d *extdata/testMouse/WithorgAnn/Summary.xls
beff7a5dd7d6dcf1ae438ddda3315b46 *extdata/testMouse/WithorgAnn/mRIPK1stop.gbk
126ee7da5eecc5314847a38964862e3f *extdata/testMouse/WithorgAnn/pairedgRNAs.xls
f013b7305c5bcd9a4fb86db2601d381d *extdata/testNoTarget/OfftargetAnalysis.xls
f1a0839b56869f0a64ec7f7362072b10 *extdata/testNoTarget/Summary.xls
a6f08b245826a38aa777c78f4de245af *extdata/testNoTarget/negativeCntl-gRNA.fa
dc0f013bb098204d91711520a7520574 *extdata/testspeed.fa
ca191043e8dce8b421a3e95094b4b41c *extdata/tobi2.fa
b33bd6317003f10a22b09861b79131bb *extdata/unPairedSearch/withRE/OfftargetAnalysis.xls
66bc697673b565f7cb277fefb811567f *extdata/unPairedSearch/withRE/REcutDetails.xls
04d3f76489c7b06e272df62b544e428f *extdata/unPairedSearch/withRE/Summary.xls
f9f2bd5d46ff60d6c2c57a0bb36b25f7 *extdata/unPairedSearch/withRE/pairedgRNAs.xls
a6937793a5bcd362c675962c28d72945 *extdata/unPairedSearch/withoutRE/OfftargetAnalysis.xls
66bc697673b565f7cb277fefb811567f *extdata/unPairedSearch/withoutRE/REcutDetails.xls
18181139bd8a207769122a600fedc224 *extdata/unPairedSearch/withoutRE/Summary.xls
f9f2bd5d46ff60d6c2c57a0bb36b25f7 *extdata/unPairedSearch/withoutRE/pairedgRNAs.xls
8c544f2753c0589495125367d1b26b4f *help/AnIndex
6072f49ddb1c38db5af23a55f9396b0a *help/CRISPRseek.rdb
b25764cf100158541f42f2ef686d36b2 *help/CRISPRseek.rdx
e30d1e2f01385bec1e4dd43921fc4ef7 *help/aliases.rds
2013cd31565dae18c59505dcaf956868 *help/paths.rds
4fa4dea751c18394e221b559a0835981 *html/00Index.html
f8c6fe17867eff7da5f67198cfd48e8e *html/CRISPRseek-package.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
f8252e37ca56f3e64892ff89928a547c *html/annotateOffTargets.html
ce63862920c58f28c774ef62c440f8bb *html/buildFeatureVectorForScoring.html
a15959b7daf422520675b3fa87b7cf48 *html/calculategRNAEfficiency.html
adcfdd326e8a2431d11ace665149ac13 *html/compare2Sequences.html
06fd61b5eb4deadbe69eaf843ef75b3b *html/filterOffTarget.html
33389412379049b4ae092e3c79f3740d *html/filtergRNA.html
6e9e829e7d3fc316bbb75d28dfaf59b0 *html/findgRNAs.html
67a5cb5da7ed3d4093e80a8cf621bc0f *html/getOfftargetScore.html
2c9fd05d2bac69e841e9dc0cc72d08f1 *html/isPatternUnique.html
e74511b2efc5059ebbbc9700a5c526e8 *html/offTargetAnalysis.html
9144c91072201d5cf873b52f40b4c1c7 *html/searchHits.html
76a9421c28fb203e7bdafcc71abfedb9 *html/searchHits2.html
ceb11127a47b6dbda6af78c9bfb5b8e2 *html/translatePattern.html
132ecab67b235ac2bbeed13c53bc93f5 *html/uniqueREs.html
507eae2e751e31beaa63d8d6f1585e62 *html/writeHits.html
ff4f02bec84ae28c023ca6fe0492f0c7 *html/writeHits2.html
2ccb3db8ef3b36a116616cbfa2681fab *unitTests/test_compare2Sequences.R
29d3d38d8716ca4a3f428b7648d42163 *unitTests/test_gRNAprovidedCompare2Seqs.R
ff9a7620b9a2e518795575c1b430a495 *unitTests/test_gRNAprovidedNoPAM.R
25fb37ac30f2eb504252c0ea6836a389 *unitTests/test_getOfftargetScore2.R
9d3b2f05e68d63b36a3c4802ab95fc5d *unitTests/test_mouse_orgAnn_annotateExon.R
3bcdd853cb16be58fd77250fd7ff8e90 *unitTests/test_offTargetAnalysis.R
9dcd32e4f4a759ef0f90ef6ba9e5d937 *unitTests/test_targetNotFound.R
