Bioinformatics Asked by Sylvia Rodriguez on May 19, 2021
I am using the GSVA
package in R to do single sample gene set enrichment analysis (ssgsea) using method = ssgsea
. This works, but I do not understand the output.
My full code is too long to post here, but the output I get is summarised in the data.frame
df
below.
Why are all 1084 data points around -0.96, except for two, which are around 0.036? I expected an output similar to a normal distribution. Can anyone explain?
I liked this post, but it did not help me understand:
Intuitive explanation of GSVA analysis
df <- data.frame(signature = c("-0.964276426", "-0.964247731", "-0.96419991", "-0.963820692", "-0.963819435", "-0.963818779", "-0.963816325", "-0.963816261", "-0.963815189", "-0.9638144", "-0.963813166", "-0.96381049", "-0.963809529", "-0.96380853", "-0.963808015", "-0.963806952", "-0.963804683", "-0.96380347", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246",
"-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246",
"-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246",
"-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246",
"-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963803246", "-0.963800168", "-0.963799456", "-0.963797975", "-0.963797975", "-0.963794752", "-0.963793885", "-0.963793885", "-0.963792992", "-0.963792311", "-0.963792071", "-0.963792071", "-0.963792071", "-0.963790137", "-0.963787531", "-0.963782904", "-0.963780881", "-0.963780881", "-0.963779882", "-0.963778079",
"-0.963771667", "-0.963765963", "-0.963763848", "-0.963760057", "-0.963759236", "-0.963757424", "-0.963756711", "-0.963754019", "-0.963754019", "-0.96374789", "-0.963744735", "-0.963730372", "-0.963728403", "-0.96372331", "-0.963704339", "-0.963676579", "-0.963637949", "-0.963630838", "-0.963630838", "-0.963624457", "-0.963616957", "-0.963615634", "-0.963607788", "-0.963607788", "-0.963607788", "-0.963607788", "-0.963541775", "-0.963465906", "-0.963457813", "-0.963453638",
"-0.963451054", "-0.963451054", "-0.963451054", "-0.963447709", "-0.963442542", "-0.963439488", "-0.963439099", "-0.963418854", "-0.963418854", "-0.963418126", "-0.963417753", "-0.963417753", "-0.963417571", "-0.9634162", "-0.963415795", "-0.963415795", "-0.963414965", "-0.963412288", "-0.963412288", "-0.963411326", "-0.963410831", "-0.963405877", "-0.963405877", "-0.963405263", "-0.963405263", "-0.963405263", "-0.963405263", "-0.963405054", "-0.963405054", "-0.963405054",
"-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054",
"-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054",
"-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054",
"-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963405054", "-0.963404634", "-0.963404478", "-0.96340399", "-0.963402653", "-0.963400516", "-0.963399764", "-0.963398992", "-0.963397381", "-0.963395672", "-0.963395672", "-0.963394779", "-0.963390904", "-0.963389852", "-0.963389852", "-0.963387121", "-0.96338646", "-0.963386304", "-0.963385243", "-0.963379856", "-0.96337836", "-0.963377216", "-0.963376727", "-0.96337344", "-0.963371634", "-0.963369734",
"-0.963369734", "-0.963364056", "-0.963358473", "-0.96335578", "-0.963349812", "-0.963349812", "-0.963342902", "-0.96333992", "-0.963339013", "-0.963334779", "-0.963311805", "-0.963311805", "-0.963306065", "-0.963281982", "-0.963281982", "-0.963281982", "-0.963281982", "-0.963281982", "-0.963281982", "-0.963281982", "-0.963281982", "-0.963278528", "-0.963276532", "-0.963265926", "-0.963245995", "-0.963238534", "-0.963238534", "-0.963232513", "-0.963209447", "-0.963209447", "-0.963209447", "-0.963209447", "-0.963209447", "-0.963209447", "-0.963200032", "-0.963196302", "-0.96319004", "-0.963187031", "-0.963179302", "-0.963179302",
"-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963179302", "-0.963172435", "-0.963171506", "-0.963171506", "-0.963171506", "-0.963171506", "-0.963171506", "-0.963154086", "-0.963154015", "-0.963152338", "-0.96315127", "-0.963150903", "-0.963148976", "-0.963146438", "-0.963145062", "-0.9631441", "-0.963143604", "-0.963143099", "-0.96314109", "-0.963140608", "-0.963139835", "-0.963139646", "-0.96313955", "-0.963138034", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834",
"-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834",
"-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.963137834", "-0.9631361", "-0.963135423", "-0.963135423", "-0.963134728", "-0.963134728", "-0.963134728", "-0.963134715", "-0.963132379", "-0.963127545", "-0.963122616", "-0.963120395", "-0.963119383", "-0.963117116", "-0.96311654", "-0.963114047", "-0.9631094", "-0.9631094", "-0.963105922", "-0.963092027", "-0.963091222", "-0.963091222", "-0.963084706", "-0.963082556", "-0.963063097",
"-0.963052138", "-0.963012789", "-0.96300668", "-0.963005654", "-0.963000946", "-0.963000396", "-0.962998494", "-0.962998145", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962997265", "-0.962995525", "-0.962993412", "-0.962990435", "-0.962987887", "-0.962986967", "-0.962985091", "-0.962983525", "-0.962983525", "-0.96297581", "-0.962972032", "-0.962965198", "-0.962965198", "-0.962962947", "-0.962955538", "-0.962953161", "-0.962942119", "-0.962942119", "-0.962942119", "-0.962941963", "-0.962938638", "-0.962931734", "-0.962922318", "-0.962904168", "-0.962904168", "-0.962870377",
"-0.962870377", "-0.962850076", "-0.962848938", "-0.96284735", "-0.962842898", "-0.962842609", "-0.962842609", "-0.962842609", "-0.962842609", "-0.962842609", "-0.962831752", "-0.962824565", "-0.962817366", "-0.962798776", "-0.962776677", "-0.962744422", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962739169", "-0.962710268", "-0.96269504", "-0.962691206", "-0.962691206", "-0.962669917", "-0.962669917", "-0.962667175", "-0.962667175", "-0.962666518", "-0.962665496", "-0.962665145", "-0.962664789", "-0.96266406", "-0.962663307", "-0.962661726", "-0.962661726", "-0.962660468", "-0.962659141", "-0.962658682", "-0.962658214", "-0.962657737", "-0.962657251", "-0.962656756", "-0.962655734", "-0.962654119", "-0.962653557", "-0.962653557", "-0.962652983", "-0.962652572",
"-0.962651795", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999",
"-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999",
"-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999",
"-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650999", "-0.962650551", "-0.962650166", "-0.962649245", "-0.962649245", "-0.962648567", "-0.962647872", "-0.962646427", "-0.962646414", "-0.962646118", "-0.962645675", "-0.962645675", "-0.962643288", "-0.962643288",
"-0.962637402", "-0.962636803", "-0.962636466", "-0.962635749", "-0.962635749", "-0.962635749", "-0.962634658", "-0.962633527", "-0.962632353", "-0.962631908", "-0.962631134", "-0.962631134", "-0.962628548", "-0.962628548", "-0.962628548", "-0.962626663", "-0.962626529", "-0.96262574", "-0.962624908", "-0.962624609", "-0.962621036", "-0.962621036", "-0.962619315", "-0.962619315", "-0.962619315", "-0.962617507", "-0.962617507", "-0.962616855", "-0.962615605", "-0.962615605", "-0.962613599", "-0.96261148", "-0.962606858", "-0.962605755", "-0.962604328", "-0.962604328", "-0.962603918", "-0.962601631", "-0.962600238", "-0.962598747", "-0.962597207", "-0.962595655", "-0.962594005", "-0.962589894", "-0.962589322", "-0.962584466", "-0.962583617", "-0.96258325", "-0.962583072", "-0.962583072",
"-0.962583072", "-0.962583072", "-0.962583072", "-0.962583072", "-0.962583072", "-0.962583072", "-0.962583072", "-0.962583072", "-0.962583072", "-0.962580601", "-0.962580601", "-0.962576877", "-0.962576176", "-0.962575961", "-0.962570936", "-0.962570858", "-0.962570858", "-0.962566397", "-0.962532599", "-0.962530458", "-0.962528269", "-0.962527491", "-0.962526698", "-0.962525429", "-0.962524028", "-0.962524028", "-0.962522823", "-0.962522212", "-0.962520694", "-0.962519477", "-0.962516905", "-0.962516905", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963",
"-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962515963", "-0.962514865", "-0.962514865", "-0.962513526", "-0.962513526", "-0.962512831", "-0.962511516", "-0.962511516", "-0.962511516", "-0.962507016",
"-0.962507016", "-0.962506535", "-0.962503763", "-0.962503691", "-0.962502778", "-0.962493503", "-0.962492128", "-0.962489054", "-0.962481274", "-0.96247819", "-0.96247819", "-0.96247819", "-0.96247819", "-0.96247819", "-0.962474189", "-0.9624716", "-0.9624716", "-0.9624716", "-0.962466581", "-0.96245509", "-0.96245509", "-0.96245509", "-0.96245509", "-0.96245509", "-0.96245509", "-0.96245509", "-0.962451723", "-0.962450509", "-0.962437586", "-0.962431634", "-0.962428565", "-0.962427453", "-0.962425075", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902",
"-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962424902", "-0.962423857", "-0.962422211", "-0.962417541", "-0.96241555", "-0.962415468", "-0.962412809", "-0.962412681", "-0.962412004", "-0.96241171", "-0.962409638", "-0.962409638", "-0.962404582", "-0.962402812", "-0.962401058", "-0.962398126", "-0.962393163", "-0.962369526", "-0.962342796", "-0.962320009", "-0.962320009", "-0.962320009", "-0.962317685", "-0.962280374", "-0.962253001", "-0.962248278", "-0.962248278", "-0.962248278", "-0.962248278", "-0.962248278", "-0.962248278", "-0.962248278", "-0.962242935", "-0.962220762", "-0.962206473",
"-0.962200426", "-0.962198166", "-0.962197361", "-0.962195667", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962186644", "-0.962185532", "-0.962182784", "-0.962180524", "-0.962177198", "-0.962177198", "-0.962174424", "-0.962171365", "-0.962169141", "-0.962169141", "-0.962165478", "-0.962164158",
"-0.962162783", "-0.962161348", "-0.962159849", "-0.962139919", "-0.96209447", "-0.962080378", "-0.962077601", "-0.962077358", "-0.962052216", "-0.962033945", "-0.962033435", "-0.962013676", "-0.961960344", "-0.961960344", "-0.961960344", "-0.961959224", "-0.961955741", "-0.961868123", "0.035723574", "0.035723574"))
Get help from others!
Recent Answers
Recent Questions
© 2024 TransWikia.com. All rights reserved. Sites we Love: PCI Database, UKBizDB, Menu Kuliner, Sharing RPP