SARS-Cov-2 release - input format modification

data/Bats_TMPRSS2_codonAln_prank.phylip_phyml_tree.txt

-(rouAeg_TMPRSS2_XM_016134588:0.05626968,(pteAle_TMPRSS2_NM_001386133:0.00859853,pteVam_TMPRSS2_XM_023538199:0.01337738)0.999850:0.02316226,((rhiFer_TMPRSS2_XM_033088817:0.03274977,(hipArm_TMPRSS2_XM_019626040:0.01405727,hipArm_TMPRSS2_NW_017732334:0.04134221)0.999850:0.02273154)0.999850:0.02653049,((desRot_TMPRSS2_XM_024561824:0.05283153,(phyDis_TMPRSS2_XM_028504691:0.06183253,(stuHon_TMPRSS2_XM_037043001:0.02518806,artJam_TMPRSS2_XM_037144609:0.03025072)0.999850:0.01265798)0.999850:0.01805772)0.999850:0.06961405,(molMol_TMPRSS2_XM_036243106:0.07445678,(minNat_TMPRSS2_XM_016220949:0.07489686,((eptFus_TMPRSS2_XR_003619148:0.01627071,pipKuh_TMPRSS2_XM_036446834:0.07584755)0.999850:0.02245469,((myoDav_TMPRSS2_XM_006754330:0.01050701,myoMyo_TMPRSS2_XM_036350392:0.01268703)0.994946:0.00466736,(myoBra_TMPRSS2_XM_005885695:0.00360941,myoLuc_TMPRSS2_XM_006104440_XM_023746917:0.00721827)0.680516:0.00241590)0.999850:0.00893859)0.999850:0.04999729)0.478701:0.00599404)0.999850:0.01128858)0.999850:0.03116288)0.999850:0.06815320);

data/DGINN_202103062052_summary.tab

-File	Name	Gene	GeneSize	NbSpecies	omegaM0Bpp	omegaM0codeml	BUSTED	BUSTED_p-value	MEME_NbSites	MEME_PSS	BppM1M2	BppM1M2_p-value	BppM1M2_NbSites	BppM1M2_PSS	BppM7M8	BppM7M8_p-value	BppM7M8_NbSites	BppM7M8_PSS	BppDFP07_0DFP07	BppDFP07_0DFP07_p-value	BppDFP07_0DFP07_NbSites	BppDFP07_0DFP07_PSS	codemlM1M2	codemlM1M2_p-value	codemlM1M2_NbSites	codemlM1M2_PSS	codemlM7M8	codemlM7M8_p-value	codemlM7M8_NbSites	codemlM7M8_PSS
-Bats_TMPRSS2_codonAln_prank	Bats	TMPRSS2	496	17	0.11994443953570185779	0.124	na	na	0	na	N	0.9999980760140125	0	na	Y	0.013540419403513491	2	364, 435	Y	0.01756110933912218	6	49, 216, 268, 364, 413, 435	N	1.0	0	na	N	0.28365402649970844	0	na
-Primates_TMPRSS2_codonAln_prank	Primates	TMPRSS2	563	28	0.33353462759989532804	0.306	na	na	0	na	Y	0.010104418438157323	2	224, 412	Y	2.9590581143453536e-05	5	224, 312, 315, 412, 500	Y	0.016719533826509363	42	78, 82, 83, 86, 89, 91, 108, 110, 115, 117, 124, 127, 140, 166, 169, 192, 224, 232, 253, 266, 302, 312, 313, 315, 316, 364, 375, 376, 378, 379, 412, 426, 430, 448, 453, 455, 460, 461, 500, 503, 519, 552	Y	4.265291637964482e-06	2	224, 412	Y	9.163844876377388e-09	5	224, 312, 315, 412, 500
\ No newline at end of file

data/Primates_TMPRSS2_codonAln_prank.phylip_phyml_tree.txt

-(carSyr_TMPRSS2_XM_008068563:0.10498782,(otoGar_TMPRSS2_XM_023518095:0.12480530,(proCoq_TMPRSS2_XM_012640067:0.04867604,micMur_TMPRSS2_XM_012749836:0.10708347)0.999850:0.05038521)0.999850:0.04570907,((aotNan_TMPRSS2_XM_021669490:0.01652995,(calJac_TMPRSS2_XM_008986722:0.02477541,(saiBolBol_TMPRSS2_XM_003927595:0.02265989,(cebCapImi_TMPRSS2_XM_017538613:0.00500929,sapApe_TMPRSS2_XM_032276824:0.00341130)0.999850:0.01822206)0.954161:0.00222602)0.999850:0.00679087)0.999850:0.03721688,(((nomLeu_TMPRSS2_XM_003280394:0.00753261,hylMol_TMPRSS2_XM_032174256:0.00538577)0.999850:0.01464587,(ponAbe_TMPRSS2_XM_024239540:0.01688843,((gorGorGor_TMPRSS2_XM_004062839:0.00000001,gorGorGor_TMPRSS2_XM_019017901:0.00000001)0.999850:0.00730161,((homSap_potTMPRSS2_AK291813:0.00203948,(homSap_potTMPRSS2_AK296860:0.00074562,(homSap_TMPRSS2_AF329454:0.00078264,homSap_potTMPRSS2_U75329:0.00395940)0.993306:0.00135668)0.642405:0.00051088)0.999850:0.00348408,(panTro_TMPRSS2_XM_001172064:0.00287797,panPan_TMPRSS2_XM_003823903:0.00366881)0.999850:0.00325585)0.999850:0.00602644)0.999850:0.01012769)0.998372:0.00311564)0.999850:0.00767126,((pilTep_TMPRSS2_XM_023191879:0.01495455,(traFra_TMPRSS2_XM_033232531:0.00546825,(rhiBie_TMPRSS2_XM_017880225:0.00127629,rhiRox_TMPRSS2_XM_010354508:0.00186499)0.999850:0.00475472)0.999850:0.00495872)0.992504:0.00323405,((chlSab_TMPRSS2_XM_007968757:0.00000001,chlSab_TMPRSS2_XM_007968748:0.00000001)0.999850:0.01276860,((macFas_TMPRSS2_XM_005548643:0.00193949,(macNem_TMPRSS2_XM_011725990:0.00000001,macMul_TMPRSS2_XM_028845316:0.00319274)0.255730:0.00061313)0.999850:0.00802112,((papAnu_TMPRSS2_XM_009202216:0.00196540,theGel_TMPRSS2_XM_025380759:0.00792282)0.999850:0.00571288,(manLeu_TMPRSS2_XM_011984191:0.00695618,cerAty_TMPRSS2_XM_012037328:0.00978181)0.548752:0.00138968)0.999850:0.00247857)0.999850:0.00487056)0.999850:0.00737023)0.999850:0.02855582)0.999850:0.02333118)0.999850:0.03685660);

data/ZNF318_bat_AMLE.phylip_phyml_tree.txt

-(XM_011354834:0.00157719,XM_015600260:0.00240822,(XM_016128506:0.01361053,((XM_033103521:0.03197661,XR_002124005:0.02428585)0.999850:0.01522639,((XM_024557889:0.01959986,(XM_028511095:0.02102910,(XM_037154281:0.01751506,XM_037053455:0.01815479)0.999850:0.00941194)0.999850:0.00401886)0.999850:0.02916657,(XM_036248855:0.03863051,(XM_016212661:0.03156496,(XM_036415359:0.03313243,((XM_006100605:0.00791515,XM_005861025:0.00346474)0.999850:0.00438787,(XM_036316928:0.00404601,XM_006776447:0.01503045)0.999850:0.00273656)0.999850:0.00904132)0.999850:0.02917948)0.996459:0.00336978)0.999850:0.00402107)0.999850:0.01183408)0.999850:0.02736169)0.999850:0.01142755);