{"columns":1,"legend":[{"name":"Xenium","color":0,"marker":"circle"},{"name":"CosMx","color":1,"marker":"square"},{"name":"MERFISH","color":2,"marker":"triangle"},{"name":"ISS, osmFISH, STARmap","color":"ink2","marker":"diamond"}],"panels":[{"title":"Wall time (6 threads)","height":330,"x":{"label":"molecules","log":true},"y":{"label":"wall time, s","log":true,"fmt":"plain"},"series":[{"name":"Xenium","color":0,"marker":"circle","size":4.5,"points":[{"x":129992,"y":6.861,"title":"Xenium breast cancer, image prior, 130k molecules","rows":[["6.9 s","wall time (6 threads)"],["129,992","molecules"],["315","genes"],["35 s","CPU time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_breast_rep1_imageprior_quick","benchmark id"]]},{"x":129996,"y":8.387,"title":"Xenium breast cancer rep2, 130k molecules","rows":[["8.4 s","wall time (6 threads)"],["129,996","molecules"],["320","genes"],["43 s","CPU time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_breast_rep2_dense_quick","benchmark id"]]},{"x":130000,"y":72.88,"title":"Xenium Prime 5K ovarian, 130k molecules","rows":[["73 s","wall time (6 threads)"],["130,000","molecules"],["4,603","genes"],["120 s","CPU time"],["3","runs, median shown"],["18.0","mean 1-min load"],["xenium_prime5k_ovarian_quick","benchmark id"]]},{"x":130000,"y":7.29,"title":"Xenium mouse brain, 130k molecules","rows":[["7.3 s","wall time (6 threads)"],["130,000","molecules"],["248","genes"],["37 s","CPU time"],["3","runs, median shown"],["7.2","mean 1-min load"],["xenium_mouse_brain_ff_quick","benchmark id"]]},{"x":130000,"y":6.716,"title":"Xenium breast stroma, 130k molecules","rows":[["6.7 s","wall time (6 threads)"],["130,000","molecules"],["321","genes"],["34 s","CPU time"],["3","runs, median shown"],["7.5","mean 1-min load"],["xenium_breast_rep1_stroma_quick","benchmark id"]]},{"x":130000,"y":9.066,"title":"Xenium lung cancer, 130k molecules","rows":[["9.1 s","wall time (6 threads)"],["130,000","molecules"],["377","genes"],["47 s","CPU time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_lung_cancer_quick","benchmark id"]]},{"x":130001,"y":8.294,"title":"Xenium pancreas, 130k molecules","rows":[["8.3 s","wall time (6 threads)"],["130,001","molecules"],["376","genes"],["42 s","CPU time"],["3","runs, median shown"],["9.2","mean 1-min load"],["xenium_pancreas_377_quick","benchmark id"]]},{"x":130001,"y":7.225,"title":"Xenium breast cancer, z-stack, 130k molecules","rows":[["7.2 s","wall time (6 threads)"],["130,001","molecules"],["313","genes"],["37 s","CPU time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_breast_rep1_z_quick","benchmark id"]]},{"x":130004,"y":11.4,"title":"Xenium mouse brain, tissue edge, 130k molecules","rows":[["11.4 s","wall time (6 threads)"],["130,004","molecules"],["248","genes"],["61 s","CPU time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_mouse_brain_ff_edge_quick","benchmark id"]]},{"x":130055,"y":6.616,"title":"Xenium breast cancer, 130k molecules","rows":[["6.6 s","wall time (6 threads)"],["130,055","molecules"],["315","genes"],["32 s","CPU time"],["3","runs, median shown"],["7.1","mean 1-min load"],["xenium_breast_rep1_dense_quick","benchmark id"]]},{"x":549955,"y":38.55,"title":"Xenium breast cancer, 550k molecules","rows":[["39 s","wall time (6 threads)"],["549,955","molecules"],["321","genes"],["185 s","CPU time"],["3","runs, median shown"],["7.1","mean 1-min load"],["xenium_breast_rep1_dense_admix","benchmark id"]]},{"x":549999,"y":31.3,"title":"Xenium breast stroma, 550k molecules","rows":[["31 s","wall time (6 threads)"],["549,999","molecules"],["321","genes"],["160 s","CPU time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_breast_rep1_stroma_admix","benchmark id"]]},{"x":550000,"y":44.32,"title":"Xenium Prime 5K ovarian, 550k molecules","rows":[["44 s","wall time (6 threads)"],["550,000","molecules"],["5,030","genes"],["226 s","CPU time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_prime5k_ovarian_admix","benchmark id"]]},{"x":550000,"y":29.79,"title":"Xenium mouse brain, 550k molecules","rows":[["30 s","wall time (6 threads)"],["550,000","molecules"],["248","genes"],["151 s","CPU time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_mouse_brain_ff_admix","benchmark id"]]},{"x":550000,"y":49.9,"title":"Xenium lung cancer, 550k molecules","rows":[["50 s","wall time (6 threads)"],["550,000","molecules"],["377","genes"],["246 s","CPU time"],["3","runs, median shown"],["13.0","mean 1-min load"],["xenium_lung_cancer_admix","benchmark id"]]},{"x":1991578,"y":138.4,"title":"Xenium breast cancer, 2.0M molecules","rows":[["138 s","wall time (6 threads)"],["1,991,578","molecules"],["321","genes"],["11.2 min","CPU time"],["1","runs, median shown"],["5.2","mean 1-min load"],["xenium_breast_rep1_dense_full","benchmark id"]]},{"x":1999991,"y":193.9,"title":"Xenium pancreas, 2.0M molecules","rows":[["194 s","wall time (6 threads)"],["1,999,991","molecules"],["377","genes"],["16.1 min","CPU time"],["1","runs, median shown"],["10.4","mean 1-min load"],["xenium_pancreas_377_full","benchmark id"]]},{"x":1999997,"y":242.0,"title":"Xenium Prime 5K ovarian, 2.0M molecules","rows":[["242 s","wall time (6 threads)"],["1,999,997","molecules"],["5,088","genes"],["21.3 min","CPU time"],["1","runs, median shown"],["9.9","mean 1-min load"],["xenium_prime5k_ovarian_full","benchmark id"]]}]},{"name":"CosMx","color":1,"marker":"square","size":4.5,"points":[{"x":149771,"y":34.77,"title":"CosMx WTx colon, 150k molecules","rows":[["35 s","wall time (6 threads)"],["149,771","molecules"],["17,533","genes"],["144 s","CPU time"],["3","runs, median shown"],["7.4","mean 1-min load"],["cosmx_wtx_colon_quick","benchmark id"]]},{"x":149903,"y":28.67,"title":"CosMx lung cancer, 150k molecules","rows":[["29 s","wall time (6 threads)"],["149,903","molecules"],["960","genes"],["104 s","CPU time"],["3","runs, median shown"],["16.6","mean 1-min load"],["cosmx_nsclc_lung5_rep1_quick","benchmark id"]]},{"x":1967437,"y":242.9,"title":"CosMx lung cancer, 2.0M molecules","rows":[["243 s","wall time (6 threads)"],["1,967,437","molecules"],["960","genes"],["21.4 min","CPU time"],["1","runs, median shown"],["10.6","mean 1-min load"],["cosmx_nsclc_lung5_rep1_full","benchmark id"]]}]},{"name":"MERFISH","color":2,"marker":"triangle","size":4.5,"points":[{"x":149356,"y":10.38,"title":"MERFISH ileum (3D), 149k molecules","rows":[["10.4 s","wall time (6 threads)"],["149,356","molecules"],["239","genes"],["52 s","CPU time"],["3","runs, median shown"],["12.3","mean 1-min load"],["merfish_ileum_quick","benchmark id"]]},{"x":819665,"y":67.4,"title":"MERFISH ileum (3D), 820k molecules","rows":[["67 s","wall time (6 threads)"],["819,665","molecules"],["241","genes"],["340 s","CPU time"],["1","runs, median shown"],["6.4","mean 1-min load"],["merfish_ileum_full","benchmark id"]]}]},{"name":"ISS, osmFISH, STARmap","color":"ink2","marker":"diamond","size":4.5,"points":[{"x":82077,"y":8.893,"title":"ISS hippocampus, 82k molecules","rows":[["8.9 s","wall time (6 threads)"],["82,077","molecules"],["84","genes"],["43 s","CPU time"],["3","runs, median shown"],["12.4","mean 1-min load"],["iss_mouse_hippocampus_quick","benchmark id"]]},{"x":149994,"y":10.81,"title":"STARmap cortex (3D), 150k molecules","rows":[["10.8 s","wall time (6 threads)"],["149,994","molecules"],["1,020","genes"],["55 s","CPU time"],["3","runs, median shown"],["9.4","mean 1-min load"],["starmap_visual_cortex_quick","benchmark id"]]},{"x":149997,"y":8.146,"title":"osmFISH cortex, 150k molecules","rows":[["8.1 s","wall time (6 threads)"],["149,997","molecules"],["35","genes"],["39 s","CPU time"],["3","runs, median shown"],["9.2","mean 1-min load"],["osmfish_somatosensory_quick","benchmark id"]]}]}],"labels":[{"x":149771,"y":34.77,"dx":9,"dy":4,"text":"CosMx WTx colon, 17,533 genes"},{"x":550000,"y":44.32,"dx":9,"dy":4,"text":"Xenium Prime 5K ovarian, 5,030 genes"},{"x":1999997,"y":242.0,"dx":9,"dy":4,"text":"Xenium Prime 5K ovarian, 5,088 genes"},{"x":130000,"y":72.88,"dx":9,"dy":4,"text":"Xenium Prime 5K ovarian, 4,603 genes"}]},{"title":"Peak memory (6 threads)","height":330,"x":{"label":"molecules","log":true},"y":{"label":"peak memory (RSS), MiB","log":true,"fmt":"plain"},"series":[{"name":"Xenium","color":0,"marker":"circle","size":4.5,"points":[{"x":129992,"y":177.2,"title":"Xenium breast cancer, image prior, 130k molecules","rows":[["177 MiB","peak memory (6 threads)"],["129,992","molecules"],["315","genes"],["6.9 s","wall time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_breast_rep1_imageprior_quick","benchmark id"]]},{"x":129996,"y":183.1,"title":"Xenium breast cancer rep2, 130k molecules","rows":[["183 MiB","peak memory (6 threads)"],["129,996","molecules"],["320","genes"],["8.4 s","wall time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_breast_rep2_dense_quick","benchmark id"]]},{"x":130000,"y":352.6,"title":"Xenium Prime 5K ovarian, 130k molecules","rows":[["353 MiB","peak memory (6 threads)"],["130,000","molecules"],["4,603","genes"],["73 s","wall time"],["3","runs, median shown"],["18.0","mean 1-min load"],["xenium_prime5k_ovarian_quick","benchmark id"]]},{"x":130000,"y":185.9,"title":"Xenium mouse brain, 130k molecules","rows":[["186 MiB","peak memory (6 threads)"],["130,000","molecules"],["248","genes"],["7.3 s","wall time"],["3","runs, median shown"],["7.2","mean 1-min load"],["xenium_mouse_brain_ff_quick","benchmark id"]]},{"x":130000,"y":191.4,"title":"Xenium breast stroma, 130k molecules","rows":[["191 MiB","peak memory (6 threads)"],["130,000","molecules"],["321","genes"],["6.7 s","wall time"],["3","runs, median shown"],["7.5","mean 1-min load"],["xenium_breast_rep1_stroma_quick","benchmark id"]]},{"x":130000,"y":186.1,"title":"Xenium lung cancer, 130k molecules","rows":[["186 MiB","peak memory (6 threads)"],["130,000","molecules"],["377","genes"],["9.1 s","wall time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_lung_cancer_quick","benchmark id"]]},{"x":130001,"y":187.4,"title":"Xenium pancreas, 130k molecules","rows":[["187 MiB","peak memory (6 threads)"],["130,001","molecules"],["376","genes"],["8.3 s","wall time"],["3","runs, median shown"],["9.2","mean 1-min load"],["xenium_pancreas_377_quick","benchmark id"]]},{"x":130001,"y":192.0,"title":"Xenium breast cancer, z-stack, 130k molecules","rows":[["192 MiB","peak memory (6 threads)"],["130,001","molecules"],["313","genes"],["7.2 s","wall time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_breast_rep1_z_quick","benchmark id"]]},{"x":130004,"y":185.8,"title":"Xenium mouse brain, tissue edge, 130k molecules","rows":[["186 MiB","peak memory (6 threads)"],["130,004","molecules"],["248","genes"],["11.4 s","wall time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_mouse_brain_ff_edge_quick","benchmark id"]]},{"x":130055,"y":183.7,"title":"Xenium breast cancer, 130k molecules","rows":[["184 MiB","peak memory (6 threads)"],["130,055","molecules"],["315","genes"],["6.6 s","wall time"],["3","runs, median shown"],["7.1","mean 1-min load"],["xenium_breast_rep1_dense_quick","benchmark id"]]},{"x":549955,"y":393.9,"title":"Xenium breast cancer, 550k molecules","rows":[["394 MiB","peak memory (6 threads)"],["549,955","molecules"],["321","genes"],["39 s","wall time"],["3","runs, median shown"],["7.1","mean 1-min load"],["xenium_breast_rep1_dense_admix","benchmark id"]]},{"x":549999,"y":378.3,"title":"Xenium breast stroma, 550k molecules","rows":[["378 MiB","peak memory (6 threads)"],["549,999","molecules"],["321","genes"],["31 s","wall time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_breast_rep1_stroma_admix","benchmark id"]]},{"x":550000,"y":398.8,"title":"Xenium Prime 5K ovarian, 550k molecules","rows":[["399 MiB","peak memory (6 threads)"],["550,000","molecules"],["5,030","genes"],["44 s","wall time"],["3","runs, median shown"],["6.2","mean 1-min load"],["xenium_prime5k_ovarian_admix","benchmark id"]]},{"x":550000,"y":378.4,"title":"Xenium mouse brain, 550k molecules","rows":[["378 MiB","peak memory (6 threads)"],["550,000","molecules"],["248","genes"],["30 s","wall time"],["3","runs, median shown"],["6.9","mean 1-min load"],["xenium_mouse_brain_ff_admix","benchmark id"]]},{"x":550000,"y":393.3,"title":"Xenium lung cancer, 550k molecules","rows":[["393 MiB","peak memory (6 threads)"],["550,000","molecules"],["377","genes"],["50 s","wall time"],["3","runs, median shown"],["13.0","mean 1-min load"],["xenium_lung_cancer_admix","benchmark id"]]},{"x":1991578,"y":1087.0,"title":"Xenium breast cancer, 2.0M molecules","rows":[["1.06 GiB","peak memory (6 threads)"],["1,991,578","molecules"],["321","genes"],["138 s","wall time"],["1","runs, median shown"],["5.2","mean 1-min load"],["xenium_breast_rep1_dense_full","benchmark id"]]},{"x":1999991,"y":1088.0,"title":"Xenium pancreas, 2.0M molecules","rows":[["1.06 GiB","peak memory (6 threads)"],["1,999,991","molecules"],["377","genes"],["194 s","wall time"],["1","runs, median shown"],["10.4","mean 1-min load"],["xenium_pancreas_377_full","benchmark id"]]},{"x":1999997,"y":1084.0,"title":"Xenium Prime 5K ovarian, 2.0M molecules","rows":[["1.06 GiB","peak memory (6 threads)"],["1,999,997","molecules"],["5,088","genes"],["242 s","wall time"],["1","runs, median shown"],["9.9","mean 1-min load"],["xenium_prime5k_ovarian_full","benchmark id"]]}]},{"name":"CosMx","color":1,"marker":"square","size":4.5,"points":[{"x":149771,"y":1038.0,"title":"CosMx WTx colon, 150k molecules","rows":[["1.01 GiB","peak memory (6 threads)"],["149,771","molecules"],["17,533","genes"],["35 s","wall time"],["3","runs, median shown"],["7.4","mean 1-min load"],["cosmx_wtx_colon_quick","benchmark id"]]},{"x":149903,"y":192.8,"title":"CosMx lung cancer, 150k molecules","rows":[["193 MiB","peak memory (6 threads)"],["149,903","molecules"],["960","genes"],["29 s","wall time"],["3","runs, median shown"],["16.6","mean 1-min load"],["cosmx_nsclc_lung5_rep1_quick","benchmark id"]]},{"x":1967437,"y":1100.0,"title":"CosMx lung cancer, 2.0M molecules","rows":[["1.07 GiB","peak memory (6 threads)"],["1,967,437","molecules"],["960","genes"],["243 s","wall time"],["1","runs, median shown"],["10.6","mean 1-min load"],["cosmx_nsclc_lung5_rep1_full","benchmark id"]]}]},{"name":"MERFISH","color":2,"marker":"triangle","size":4.5,"points":[{"x":149356,"y":192.8,"title":"MERFISH ileum (3D), 149k molecules","rows":[["193 MiB","peak memory (6 threads)"],["149,356","molecules"],["239","genes"],["10.4 s","wall time"],["3","runs, median shown"],["12.3","mean 1-min load"],["merfish_ileum_quick","benchmark id"]]},{"x":819665,"y":534.4,"title":"MERFISH ileum (3D), 820k molecules","rows":[["534 MiB","peak memory (6 threads)"],["819,665","molecules"],["241","genes"],["67 s","wall time"],["1","runs, median shown"],["6.4","mean 1-min load"],["merfish_ileum_full","benchmark id"]]}]},{"name":"ISS, osmFISH, STARmap","color":"ink2","marker":"diamond","size":4.5,"points":[{"x":82077,"y":158.3,"title":"ISS hippocampus, 82k molecules","rows":[["158 MiB","peak memory (6 threads)"],["82,077","molecules"],["84","genes"],["8.9 s","wall time"],["3","runs, median shown"],["12.4","mean 1-min load"],["iss_mouse_hippocampus_quick","benchmark id"]]},{"x":149994,"y":217.6,"title":"STARmap cortex (3D), 150k molecules","rows":[["218 MiB","peak memory (6 threads)"],["149,994","molecules"],["1,020","genes"],["10.8 s","wall time"],["3","runs, median shown"],["9.4","mean 1-min load"],["starmap_visual_cortex_quick","benchmark id"]]},{"x":149997,"y":168.8,"title":"osmFISH cortex, 150k molecules","rows":[["169 MiB","peak memory (6 threads)"],["149,997","molecules"],["35","genes"],["8.1 s","wall time"],["3","runs, median shown"],["9.2","mean 1-min load"],["osmfish_somatosensory_quick","benchmark id"]]}]}],"labels":[{"x":149771,"y":1038.0,"dx":9,"dy":4,"text":"CosMx WTx colon, 17,533 genes"},{"x":550000,"y":398.8,"dx":9,"dy":4,"text":"Xenium Prime 5K ovarian, 5,030 genes"},{"x":1999997,"y":1084.0,"dx":9,"dy":4,"text":"Xenium Prime 5K ovarian, 5,088 genes"},{"x":130000,"y":352.6,"dx":9,"dy":4,"text":"Xenium Prime 5K ovarian, 4,603 genes"}]}],"table":{"columns":["dataset","platform","molecules","genes","wall time","CPU time","peak RSS","runs","load","benchmark id"],"rows":[["ISS hippocampus","ISS","82,077","84","8.9 s","43 s","158 MiB",3,"12.4","iss_mouse_hippocampus_quick"],["Xenium breast cancer, image prior","Xenium","129,992","315","6.9 s","35 s","177 MiB",3,"6.9","xenium_breast_rep1_imageprior_quick"],["Xenium breast cancer rep2","Xenium","129,996","320","8.4 s","43 s","183 MiB",3,"6.2","xenium_breast_rep2_dense_quick"],["Xenium Prime 5K ovarian","Xenium","130,000","4,603","73 s","120 s","353 MiB",3,"18.0","xenium_prime5k_ovarian_quick"],["Xenium breast stroma","Xenium","130,000","321","6.7 s","34 s","191 MiB",3,"7.5","xenium_breast_rep1_stroma_quick"],["Xenium mouse brain","Xenium","130,000","248","7.3 s","37 s","186 MiB",3,"7.2","xenium_mouse_brain_ff_quick"],["Xenium lung cancer","Xenium","130,000","377","9.1 s","47 s","186 MiB",3,"6.2","xenium_lung_cancer_quick"],["Xenium pancreas","Xenium","130,001","376","8.3 s","42 s","187 MiB",3,"9.2","xenium_pancreas_377_quick"],["Xenium breast cancer, z-stack","Xenium","130,001","313","7.2 s","37 s","192 MiB",3,"6.2","xenium_breast_rep1_z_quick"],["Xenium mouse brain, tissue edge","Xenium","130,004","248","11.4 s","61 s","186 MiB",3,"6.9","xenium_mouse_brain_ff_edge_quick"],["Xenium breast cancer","Xenium","130,055","315","6.6 s","32 s","184 MiB",3,"7.1","xenium_breast_rep1_dense_quick"],["MERFISH ileum (3D)","MERFISH","149,356","239","10.4 s","52 s","193 MiB",3,"12.3","merfish_ileum_quick"],["CosMx WTx colon","CosMx SMI","149,771","17,533","35 s","144 s","1.01 GiB",3,"7.4","cosmx_wtx_colon_quick"],["CosMx lung cancer","CosMx SMI","149,903","960","29 s","104 s","193 MiB",3,"16.6","cosmx_nsclc_lung5_rep1_quick"],["STARmap cortex (3D)","STARmap","149,994","1,020","10.8 s","55 s","218 MiB",3,"9.4","starmap_visual_cortex_quick"],["osmFISH cortex","osmFISH","149,997","35","8.1 s","39 s","169 MiB",3,"9.2","osmfish_somatosensory_quick"],["Xenium breast cancer","Xenium","549,955","321","39 s","185 s","394 MiB",3,"7.1","xenium_breast_rep1_dense_admix"],["Xenium breast stroma","Xenium","549,999","321","31 s","160 s","378 MiB",3,"6.9","xenium_breast_rep1_stroma_admix"],["Xenium mouse brain","Xenium","550,000","248","30 s","151 s","378 MiB",3,"6.9","xenium_mouse_brain_ff_admix"],["Xenium Prime 5K ovarian","Xenium","550,000","5,030","44 s","226 s","399 MiB",3,"6.2","xenium_prime5k_ovarian_admix"],["Xenium lung cancer","Xenium","550,000","377","50 s","246 s","393 MiB",3,"13.0","xenium_lung_cancer_admix"],["MERFISH ileum (3D)","MERFISH","819,665","241","67 s","340 s","534 MiB",1,"6.4","merfish_ileum_full"],["CosMx lung cancer","CosMx SMI","1,967,437","960","243 s","21.4 min","1.07 GiB",1,"10.6","cosmx_nsclc_lung5_rep1_full"],["Xenium breast cancer","Xenium","1,991,578","321","138 s","11.2 min","1.06 GiB",1,"5.2","xenium_breast_rep1_dense_full"],["Xenium pancreas","Xenium","1,999,991","377","194 s","16.1 min","1.06 GiB",1,"10.4","xenium_pancreas_377_full"],["Xenium Prime 5K ovarian","Xenium","1,999,997","5,088","242 s","21.3 min","1.06 GiB",1,"9.9","xenium_prime5k_ovarian_full"]]}}
