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Rhea (pipeline)

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language used throughout development. Moreover, as stated in the original publication, the name was chosen to reflect the flowing and evolving nature of the scripts, as "flow" is one of the suggested etymology of the name of the mythological goddess
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for the analysis of microbial profiles. It was released during the end of 2016 and it is publicly available through a
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Lagkouvardos, Ilias; Fischer, Sandra; Kumar, Neeraj; Clavel, Thomas (11 January 2017).
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The name Rhea was primarily given to the pipeline as a phonetic and visual link to the
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provides insufficient context for those unfamiliar with the subject
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Ilias Lagkouvardos, Sandra Fischer, Neeraj Kumar, Thomas Clavel
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You can help Knowledge by 833: 812:Science software for Linux 729: 219:Operational taxonomic unit 102:16 November 2016 403: 129: 113: 79: 797:R (programming language) 381:R (programming language) 555:Emacs Speaks Statistics 817:Science software stubs 699:(formerly RStudio PBC) 340:lagkouvardos.github.io 336:"Rhea by Lagkouvardos" 204:bioinformatic pipeline 687:Revolution Analytics 251:Correlation analysis 744:scientific software 431:(Revolution R Open) 248:Statistical testing 228:Calculation of the 76: 40:improve the article 303:10.7717/peerj.2836 759: 758: 724: 723: 626:Dirk Eddelbuettel 245:Taxonomic binning 217:Starting with an 197: 196: 72: 71: 64: 824: 780: 773: 766: 738: 731: 631:Robert Gentleman 429:Microsoft R Open 409: 374: 367: 360: 351: 344: 343: 332: 326: 325: 315: 305: 281: 145:Operating system 109: 107: 84: 77: 67: 60: 56: 53: 47: 27: 26: 19: 832: 831: 827: 826: 825: 823: 822: 821: 787: 786: 785: 784: 727: 725: 720: 702: 670: 646:Brian D. Ripley 594: 536: 439: 416:Implementations 410: 401: 383: 378: 348: 347: 334: 333: 329: 283: 282: 275: 270: 235:Calculation of 232:for each sample 230:alpha diversity 125: 105: 103: 99:Initial release 68: 57: 51: 48: 37: 28: 24: 17: 12: 11: 5: 830: 828: 820: 819: 814: 809: 804: 799: 789: 788: 783: 782: 775: 768: 760: 757: 756: 739: 722: 721: 719: 718: 710: 708: 704: 703: 701: 700: 694: 689: 684: 678: 676: 672: 671: 669: 668: 663: 661:Hadley Wickham 658: 653: 648: 643: 638: 633: 628: 623: 621:Peter Dalgaard 618: 613: 608: 602: 600: 596: 595: 593: 592: 587: 582: 577: 572: 567: 562: 560:Java GUI for R 557: 552: 546: 544: 538: 537: 535: 534: 533: 532: 527: 522: 510: 505: 500: 495: 490: 485: 480: 475: 470: 465: 460: 455: 449: 447: 441: 440: 438: 437: 432: 426: 420: 418: 412: 411: 404: 402: 400: 399: 393: 391: 385: 384: 379: 377: 376: 369: 362: 354: 346: 345: 327: 272: 271: 269: 266: 253: 252: 249: 246: 243: 237:beta diversity 233: 226: 195: 194: 189: 185: 184: 179: 173: 172: 147: 141: 140: 135: 131: 130: 127: 126: 123: 121: 119:Stable release 115: 114: 111: 110: 100: 96: 95: 92: 86: 85: 70: 69: 31: 29: 22: 15: 13: 10: 9: 6: 4: 3: 2: 829: 818: 815: 813: 810: 808: 805: 803: 800: 798: 795: 794: 792: 781: 776: 774: 769: 767: 762: 761: 755: 753: 749: 746:article is a 745: 740: 737: 733: 728: 717: 716: 715:The R Journal 712: 711: 709: 705: 698: 695: 693: 690: 688: 685: 683: 680: 679: 677: 675:Organisations 673: 667: 664: 662: 659: 657: 654: 652: 649: 647: 644: 642: 641:Thomas Lumley 639: 637: 634: 632: 629: 627: 624: 622: 619: 617: 616:John Chambers 614: 612: 609: 607: 604: 603: 601: 597: 591: 588: 586: 583: 581: 578: 576: 573: 571: 568: 566: 563: 561: 558: 556: 553: 551: 548: 547: 545: 543: 539: 531: 528: 526: 523: 521: 518: 517: 516: 515: 511: 509: 506: 504: 501: 499: 496: 494: 491: 489: 486: 484: 481: 479: 476: 474: 471: 469: 466: 464: 461: 459: 456: 454: 451: 450: 448: 446: 442: 436: 433: 430: 427: 425: 424:Distributed R 422: 421: 419: 417: 413: 408: 398: 395: 394: 392: 390: 386: 382: 375: 370: 368: 363: 361: 356: 355: 352: 341: 337: 331: 328: 323: 319: 314: 309: 304: 299: 295: 291: 287: 280: 278: 274: 267: 265: 263: 258: 250: 247: 244: 242: 238: 234: 231: 227: 224: 223: 222: 220: 215: 213: 209: 205: 201: 193: 190: 186: 183: 180: 178: 174: 171: 167: 166:Red Hat Linux 163: 159: 155: 151: 148: 146: 142: 139: 136: 132: 128: 122: 120: 116: 112: 101: 97: 93: 91: 87: 83: 78: 66: 63: 55: 45: 41: 35: 32:This article 30: 21: 20: 752:expanding it 741: 726: 713: 707:Publications 682:R Consortium 656:Luke Tierney 606:Roger Bivand 512: 477: 453:Bibliometrix 339: 330: 293: 289: 254: 216: 214:repository. 199: 198: 90:Developer(s) 58: 49: 38:Please help 33: 651:Julia Silge 611:Jenny Bryan 575:R Commander 206:written in 182:MIT License 791:Categories 636:Ross Ihaka 570:Rattle GUI 542:Interfaces 268:References 208:R language 134:Written in 106:2016-11-16 52:March 2017 697:Posit PBC 666:Yihui Xie 514:tidyverse 508:Statcheck 503:SimpleITK 458:easystats 296:: e2836. 124:1.1.0 692:R-Ladies 565:KH Coder 483:Rmetrics 445:Packages 389:Features 322:28097056 170:openSUSE 590:RStudio 520:ggplot2 313:5234437 188:Website 177:License 150:Windows 104: ( 599:People 585:RKWard 580:RExcel 435:Renjin 397:Sweave 320:  310:  212:GitHub 162:Fedora 158:Ubuntu 742:This 530:knitr 525:dplyr 498:Shiny 473:RGtk2 290:PeerJ 202:is a 154:macOS 748:stub 550:Bio7 493:RQDA 478:Rhea 468:lumi 463:qdap 318:PMID 262:Rhea 241:PCoA 200:Rhea 75:Rhea 16:Rhea 488:rnn 308:PMC 298:doi 42:by 793:: 338:. 316:. 306:. 292:. 288:. 276:^ 264:. 168:, 164:, 160:, 156:, 152:, 779:e 772:t 765:v 754:. 373:e 366:t 359:v 342:. 324:. 300:: 294:5 257:R 138:R 108:) 65:) 59:( 54:) 50:( 46:. 36:.

Index

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providing more context for the reader
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Developer(s)
Stable release
R
Operating system
Windows
macOS
Ubuntu
Fedora
Red Hat Linux
openSUSE
License
MIT License
https://lagkouvardos.github.io/Rhea/
bioinformatic pipeline
R language
GitHub
Operational taxonomic unit
alpha diversity
beta diversity
PCoA
R
Rhea


"Rhea: a transparent and modular R pipeline for microbial profiling based on 16S rRNA gene amplicons"
doi

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