Sample set summary

Classification results

Sankey visualization

Cs_ind1
Cs_ind2
Gs_pool
Gt_pool
Lc_ind1
Lc_ind2
Lc_ind3
Lc_pool
Lp_ind1
Lp_ind2
Lp_ind3
Ml_ind1
Ml_ind2
Ml_ind3
Ml_pool
Mo_ind1
Mo_ind2
Mo_ind3
Mo_pool
Ms_ind1
Ms_ind2
Ms_ind3
Ms_pool1
Ms_pool2
Ms_pool3
Ms_pool4
Ms_pool5
Ms_pool6
Ms_pool7
Os_ind1
Os_ind2
Os_ind3
Os_pool
Ov_pool
Ps_ind1
Ps_ind2
Ps_ind3
Ps_pool1
Sv_ind1
Sv_ind2
Sv_ind3
Sv_pool
Tp_ind1
Tp_ind2
Tp_ind3
Tp_pool1
Vc_ind1
Vc_ind2
Vc_ind3
Vc_pool

About

Sample set summary

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Name	Number of raw reads	Classified reads	Chordate reads	Artificial reads	Unclassified reads	Microbial reads	Bacterial reads	Viral reads	Fungal reads	Protozoan reads
Cs_ind1	94,464	7.331%	0.01482%	0%	92.67%	7.308%	3.426%	0%	0.02964%	0%
Cs_ind2	169,406	6.698%	0.01712%	0%	93.3%	6.676%	3.183%	0%	0.01712%	0.004132%
Gs_pool	1,049,557	5.671%	0.1493%	0%	94.33%	5.518%	1.355%	0.701%	0.01534%	0.2773%
Gt_pool	1,271,893	6.987%	1.67%	0.000629%	93.01%	5.165%	1.277%	1.092%	0.08515%	0.272%
Lc_ind1	164,667	7.16%	0.2909%	0%	92.84%	6.853%	3.111%	0%	0.0413%	0.005466%
Lc_ind2	101,482	5.441%	0.01281%	0%	94.56%	5.421%	1.914%	0%	0.03547%	0.003942%
Lc_ind3	111,948	3.731%	0.01787%	0%	96.27%	3.698%	0.7316%	0.003573%	0.02144%	0%
Lc_pool	1,115,849	5.771%	1.358%	0.0008066%	94.23%	4.301%	1.93%	0.0002689%	0.03898%	0.05807%
Lp_ind1	382,199	2.586%	0.02093%	0%	97.41%	2.562%	0.6287%	0%	0.009942%	0.0005233%
Lp_ind2	329,014	2.318%	0.01702%	0%	97.68%	2.299%	0.6149%	0.002128%	0.06109%	0%
Lp_ind3	348,813	2.721%	0.0344%	0%	97.28%	2.683%	0.7497%	0%	0.009461%	0.00258%
Ml_ind1	348,103	3.224%	0.01551%	0%	96.78%	3.205%	1.982%	0.0002873%	0.02155%	0.002873%
Ml_ind2	624,550	6.898%	0.01361%	0%	93.1%	6.881%	6.078%	0%	0.005764%	0%
Ml_ind3	263,714	3.707%	0.005309%	0%	96.29%	3.7%	2.673%	0%	0.01062%	0.0007584%
Ml_pool	1,641,936	8.955%	1.207%	0.0003654%	91.04%	7.674%	6.446%	0.02004%	0.1286%	0.03045%

Showing 1 to 15 of 50 entries

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Classification results

Showing 100 of 1993 species.

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Name	Max	Cs_ind1	Cs_ind2	Gs_pool	Gt_pool	Lc_ind1	Lc_ind2	Lc_ind3	Lc_pool	Lp_ind1	Lp_ind2	Lp_ind3	Ml_ind1	Ml_ind2	Ml_ind3	Ml_pool	Mo_ind1	Mo_ind2	Mo_ind3	Mo_pool	Ms_ind1	Ms_ind2	Ms_ind3	Ms_pool1	Ms_pool2	Ms_pool3	Ms_pool4	Ms_pool5	Ms_pool6	Ms_pool7	Os_ind1	Os_ind2	Os_ind3	Os_pool	Ov_pool	Ps_ind1	Ps_ind2	Ps_ind3	Ps_pool1	Sv_ind1	Sv_ind2	Sv_ind3	Sv_pool	Tp_ind1	Tp_ind2	Tp_ind3	Tp_pool1	Vc_ind1	Vc_ind2	Vc_ind3	Vc_pool	Lineage

Name	Max	Cs_ind1	Cs_ind2	Gs_pool	Gt_pool	Lc_ind1	Lc_ind2	Lc_ind3	Lc_pool	Lp_ind1	Lp_ind2	Lp_ind3	Ml_ind1	Ml_ind2	Ml_ind3	Ml_pool	Mo_ind1	Mo_ind2	Mo_ind3	Mo_pool	Ms_ind1	Ms_ind2	Ms_ind3	Ms_pool1	Ms_pool2	Ms_pool3	Ms_pool4	Ms_pool5	Ms_pool6	Ms_pool7	Os_ind1	Os_ind2	Os_ind3	Os_pool	Ov_pool	Ps_ind1	Ps_ind2	Ps_ind3	Ps_pool1	Sv_ind1	Sv_ind2	Sv_ind3	Sv_pool	Tp_ind1	Tp_ind2	Tp_ind3	Tp_pool1	Vc_ind1	Vc_ind2	Vc_ind3	Vc_pool	Lineage
Bacillus sp. FJAT-22090	153366			17	13				12							18				26														17	19								21								153366	cellular organisms>Bacteria>Terrabacteria group>Firmicutes>Bacilli>Bacillales>Bacillaceae>Bacillus
Candidatus Regiella insecticola	110802	29	55	11	11			35	13							15561				58550	2	329	16	30509	22918	15052	6564	34889	4556	27893		1	365	229	7721			57					5	17012	13602	10870	110802	6			5	cellular organisms>Bacteria>Proteobacteria>Gammaproteobacteria>Enterobacteriales>Enterobacteriaceae>unclassified Enterobacteriaceae>ant, tsetse, mealybug, aphid, etc. endosymbionts>aphid secondary symbionts>Candidatus Regiella
Rickettsia endosymbiont of Ixodes pacificus	28894				2				2	7	3		2323	10513	2160	16789				1			1	179		4580	305	4	2	1		6	15	9	8752	3354	14348	13	28894				2		3		7026	6	1	8	3	cellular organisms>Bacteria>Proteobacteria>Alphaproteobacteria>Rickettsiales>Rickettsiaceae>Rickettsieae>Rickettsia>unclassified Rickettsia
Buchnera aphidicola	27106	3172	5298	8905	9604	4942	1907	731	11319	2330	1828	2562	2335	3512	639	13931	3684	4410	1609	16129	957	1040	1026	22743	9710	8457	8618	9035	10808	11405	1659	2171	5374	13251	16242	3063	528	991	27106	2173	1818	3693	8569	883	1302	4649	18190	2872	2384	2647	15491	cellular organisms>Bacteria>Proteobacteria>Gammaproteobacteria>Enterobacteriales>Enterobacteriaceae>Buchnera
spotted fever group	26148			1	3				6	6	3		1531	11193	1775	18951				9	4		3	203	10	4525	353	19	73	23		13	3	3	11133	2861	11365	7	26148				2		4		1581	8	2	4	191	cellular organisms>Bacteria>Proteobacteria>Alphaproteobacteria>Rickettsiales>Rickettsiaceae>Rickettsieae>Rickettsia
belli group	18432			4	2				14	3			551	11995	2329	18245				2		1	2	45		3265	384	1	1		2	8	1	5	11023	573	2645	4	18432				1		1		3927	11		1		cellular organisms>Bacteria>Proteobacteria>Alphaproteobacteria>Rickettsiales>Rickettsiaceae>Rickettsieae>Rickettsia
Rickettsia bellii	18415			4	2				14	3			551	11975	2324	18216				2		1	2	45		3257	383	1	1		2	8	1	5	11004	573	2645	4	18415				1		1		3927	11		1		cellular organisms>Bacteria>Proteobacteria>Alphaproteobacteria>Rickettsiales>Rickettsiaceae>Rickettsieae>Rickettsia>belli group
Arsenophonus nasoniae	16575	5	4	490	713				26							2147				20	42	24	2	7567	16575	224	3567	15153	556	188		1	129	137	53	6		3	489		12	23	81	2314	2129		10025	7		12	36	cellular organisms>Bacteria>Proteobacteria>Gammaproteobacteria>Enterobacteriales>Enterobacteriaceae>Arsenophonus
Rickettsia rhipicephali	14682			1	1				3	2	3		1012	6511	1060	11079				2			2	88		2723	182	1	2	1		10		2	6445	1638	6320	5	14682						4		617	5		3		cellular organisms>Bacteria>Proteobacteria>Alphaproteobacteria>Rickettsiales>Rickettsiaceae>Rickettsieae>Rickettsia>spotted fever group
Bacillus sp. 1NLA3E	10351															1				4														1	1								1							1	10351	cellular organisms>Bacteria>Terrabacteria group>Firmicutes>Bacilli>Bacillales>Bacillaceae>Bacillus
Bacillus cereus group	7812			2	3	1			3				1			5				3						2	1	1	1	1				1	1								1				1		1		7812	cellular organisms>Bacteria>Terrabacteria group>Firmicutes>Bacilli>Bacillales>Bacillaceae>Bacillus
Rhodococcus erythropolis	7646		1	1	1		1	1	654		36	1	1			7646	1	29	8	722	13	1	5	33	10	57	64	25	25	3		1	1	1		3	1	7	84	2	1	1	156	23	4	17	37	1			1486	cellular organisms>Bacteria>Terrabacteria group>Actinobacteria>Actinobacteria>Corynebacteriales>Nocardiaceae>Rhodococcus
Rickettsia massiliae	6476									1			348	2322	394	3755								41	2	985	62	9				2	1		2151	633	2829	2	6476				1				169	2	1			cellular organisms>Bacteria>Proteobacteria>Alphaproteobacteria>Rickettsiales>Rickettsiaceae>Rickettsieae>Rickettsia>spotted fever group
Serratia symbiotica	6344			3936	3396		3		1945	2						2693				2				109		1	2	6	11	6				867	2128	605	7		6344		670	1078	3992				6	441		436	1783	cellular organisms>Bacteria>Proteobacteria>Gammaproteobacteria>Enterobacteriales>Enterobacteriaceae>Serratia
Psychrobacillus insolitus	5499			2					2							2				1														1	2								1								5499	cellular organisms>Bacteria>Terrabacteria group>Firmicutes>Bacilli>Bacillales>Bacillaceae>Psychrobacillus

Showing 1 to 15 of 100 entries

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Showing 100 of 1866 species.

Showing 100 of 439 species.

Showing 100 of 1212 species.

Sankey visualization

Cs_ind1

Cs_ind2

Gs_pool

Gt_pool

Lc_ind1

Lc_ind2

Lc_ind3

Lc_pool

Lp_ind1

Lp_ind2

Lp_ind3

Ml_ind1

Ml_ind2

Ml_ind3

Ml_pool

Mo_ind1

Mo_ind2

Mo_ind3

Mo_pool

Ms_ind1

Ms_ind2

Ms_ind3

Ms_pool1

Ms_pool2

Ms_pool3

Ms_pool4

Ms_pool5

Ms_pool6

Ms_pool7

Os_ind1

Os_ind2

Os_ind3

Os_pool

Ov_pool

Ps_ind1

Ps_ind2

Ps_ind3

Ps_pool1

Sv_ind1

Sv_ind2

Sv_ind3

Sv_pool

Tp_ind1

Tp_ind2

Tp_ind3

Tp_pool1

Vc_ind1

Vc_ind2

Vc_ind3

Vc_pool

About

This file was generated with the Pavian R package version 0.8.1 on Tue May 15 17:22:58 2018. Please cite Pavian if you use it in your research.

Classification report for by_sample

Pavian R package v0.8.1

Tue May 15 17:22:49 2018