This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see http://rmarkdown.rstudio.com.
When you click the Knit button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:
fq <- read.csv("FQ.csv")
fqm <- data.frame(melt(fq, id.var="Subject.ID"))
fqm1 <- slice(fqm, 1:1717)
df = subset(fqm1, select = -c(variable))
df$value = tolower(df$value)
df1 <- df %>% group_by(value) %>%
dplyr::summarise(Subject.ID = toString(unique(Subject.ID)))
df1 <- slice(df1, 2:1219)
df2<- df %>% group_by(value) %>%
dplyr::summarize(count=n())
df2 <- slice(df2, 2:200)
df2<- df2[order(-df2$count),]
kable(df2, caption = "Frequency Distribution of Symptoms, n=89")| value | count |
|---|---|
| nervous system total | 42 |
| muscle total | 37 |
| pain total | 36 |
| tendon total | 35 |
| disabled | 22 |
| fatigue | 15 |
| neuropathy | 15 |
| anxiety | 13 |
| tendon | 13 |
| brain fog | 12 |
| walking difficulty | 11 |
| insomnia | 10 |
| tinnitus | 10 |
| depression | 9 |
| joints | 9 |
| burning | 8 |
| muscle | 8 |
| muscle fatigue | 8 |
| tingling | 8 |
| achilles tendon | 7 |
| cns | 7 |
| cognitive dysfunction | 7 |
| exercise intolerance | 6 |
| muscle pain | 6 |
| muscle wasting | 6 |
| tendonitis | 6 |
| gi | 5 |
| nerve pain | 5 |
| psychiatric | 5 |
| tendon pain | 5 |
| wheelchair | 5 |
| bedridden | 4 |
| blurry vision | 4 |
| dizziness | 4 |
| pain | 4 |
| peripheral nervous system | 4 |
| visual issues | 4 |
| back pain | 3 |
| chronic pain | 3 |
| electric pain | 3 |
| headache | 3 |
| hypertension | 3 |
| muscle weakness | 3 |
| nervous system | 3 |
| panic attacks | 3 |
| peripheral neuropathy | 3 |
| shaking | 3 |
| tendinopathy | 3 |
| used oxygen | 3 |
| aortic aneurysm | 2 |
| balance | 2 |
| cramps | 2 |
| eye problems | 2 |
| food intolerances | 2 |
| hypoglycemia | 2 |
| joint pain | 2 |
| kidney injury | 2 |
| mast cell disease | 2 |
| muscle ache | 2 |
| muscle atrophy | 2 |
| myalgias | 2 |
| nausea | 2 |
| neurological | 2 |
| neuropsychological | 2 |
| numb extremities | 2 |
| numbness | 2 |
| severe pain | 2 |
| small fiber neuropathy | 2 |
| swallowing trouble | 2 |
| tachycardia | 2 |
| thyroid | 2 |
| vertigo | 2 |
| weight loss | 2 |
| achilles tendon rupture | 1 |
| acute anemia | 1 |
| agonizing pain | 1 |
| allergic reactions | 1 |
| amino acid indigestion | 1 |
| anemia | 1 |
| aneurysms | 1 |
| ankle | 1 |
| aorta dilation | 1 |
| aortic root growth | 1 |
| arrhythmia | 1 |
| arthritis | 1 |
| autonomic dysregulation | 1 |
| autonomic nervous system | 1 |
| back spasms | 1 |
| balance issues | 1 |
| blood rush to feet | 1 |
| blurred vision | 1 |
| bones | 1 |
| breathing problems | 1 |
| broken bones | 1 |
| cardiac damage | 1 |
| cardiac issues | 1 |
| catheterization | 1 |
| chest pressure | 1 |
| chills | 1 |
| chronic fatigue | 1 |
| constipation | 1 |
| damage | 1 |
| debilitating effects | 1 |
| diastolic dysfunction | 1 |
| dietary restrictions | 1 |
| digestion issues | 1 |
| dry eyes | 1 |
| edema | 1 |
| electrosensitivity | 1 |
| eosinophilia | 1 |
| exaggerated sense of smell | 1 |
| eyesight | 1 |
| fasciculations | 1 |
| feeling faint | 1 |
| fluoride intoxication | 1 |
| formication | 1 |
| full body pain | 1 |
| gastrointenstinal issues | 1 |
| gi pain | 1 |
| hearing loss | 1 |
| hearing sensitivity | 1 |
| heart palpitations | 1 |
| high histone antibodies | 1 |
| hot and cold | 1 |
| hyperglycemia | 1 |
| hyperinsulinemia | 1 |
| hyperreflexia | 1 |
| hyperthyroidism | 1 |
| hypertonicity | 1 |
| hyponatremia | 1 |
| hypothyroidism | 1 |
| itching | 1 |
| joint damage | 1 |
| kidney pain | 1 |
| left neck pain | 1 |
| leg spasms | 1 |
| ligament tear | 1 |
| liver injury | 1 |
| low back pain | 1 |
| lower extremity atrophy | 1 |
| lung hyperexpansion | 1 |
| lupus | 1 |
| malaise | 1 |
| mcas | 1 |
| memory loss | 1 |
| multifocal pain | 1 |
| muscle aches | 1 |
| muscle pull | 1 |
| muscle spasms | 1 |
| muscle stiffness | 1 |
| muscle tear | 1 |
| muscle tightness | 1 |
| musculoskeletal pain | 1 |
| myopathy | 1 |
| nerve | 1 |
| nerve damage | 1 |
| neuropsychiatric | 1 |
| neutropenia | 1 |
| night sweats | 1 |
| numb | 1 |
| palpitations | 1 |
| paranoia | 1 |
| paresthesia | 1 |
| pericardial effusion | 1 |
| photosensitivity | 1 |
| physical | 1 |
| psychiatric problems | 1 |
| psychological | 1 |
| redness | 1 |
| ripped tendons | 1 |
| rotator cuff tear | 1 |
| seizures | 1 |
| shooting pain | 1 |
| shoulder blade pain | 1 |
| shoulder pain | 1 |
| sibo | 1 |
| sleep apnea | 1 |
| sore tendons | 1 |
| stabbing pain | 1 |
| stiff muscles | 1 |
| sucide | 1 |
| suicide | 1 |
| suicide attempt | 1 |
| swollen kidneys | 1 |
| tend | 1 |
| tendon damge | 1 |
| tendon rupture | 1 |
| tendon tearing | 1 |
| tendon tears | 1 |
| thumb joint pain | 1 |
| tmj cartilage disintegration | 1 |
| tremors | 1 |
| uti | 1 |
| vaginal/rectal cramps | 1 |
| vestibular issues | 1 |
| vomiting | 1 |
| weakness | 1 |
| white brain matter (mri) | 1 |
| worsening symptoms | 1 |
kable(df1, caption = "Master List of Symptoms with Subject ID's, n=89")| value | Subject.ID |
|---|---|
| achilles tendon | 30, 64, 31, 52, 76, 57, 72 |
| achilles tendon rupture | 29 |
| acute anemia | 51 |
| agonizing pain | 21 |
| allergic reactions | 6 |
| amino acid indigestion | 23 |
| anemia | 79 |
| aneurysms | 11 |
| ankle | 80 |
| anxiety | 22, 49, 68, 82, 17, 56, 67, 36, 42, 91, 33, 64 |
| aorta dilation | 11 |
| aortic aneurysm | 80, 78 |
| aortic root growth | 39 |
| arrhythmia | 16 |
| arthritis | 26 |
| autonomic dysregulation | 94 |
| autonomic nervous system | 86 |
| back pain | 64, 80, 79 |
| back spasms | 35 |
| balance | 33, 42 |
| balance issues | 51 |
| bedridden | 10, 22, 2, 48 |
| blood rush to feet | 44 |
| blurred vision | 47 |
| blurry vision | 36, 65, 63, 42 |
| bones | 62 |
| brain fog | 41, 49, 58, 65, 3, 24, 79, 48, 63, 68, 82, 64 |
| breathing problems | 47 |
| broken bones | 76 |
| burning | 8, 27, 5, 63, 94, 14, 64 |
| cardiac damage | 36 |
| cardiac issues | 94 |
| catheterization | 44 |
| chest pressure | 47 |
| chills | 72 |
| chronic fatigue | 58 |
| chronic pain | 32, 84, 87 |
| cns | 1, 69, 79, 81, 26, 55, 47 |
| cognitive dysfunction | 13, 33, 20, 30, 49, 2, 72 |
| constipation | 22 |
| cramps | 24, 44 |
| damage | 95 |
| debilitating effects | 89 |
| depression | 22, 70, 2, 17, 42, 36, 33, 48, 63 |
| diastolic dysfunction | 39 |
| dietary restrictions | 6 |
| digestion issues | 33 |
| disabled | 59, 61, 76, 85, 80, 18, 36, 2, 6, 10, 22, 25, 48, 65, 74 |
| dizziness | 27, 53, 72, 3 |
| dry eyes | 55 |
| edema | 72 |
| electric pain | 48, 40, 29 |
| electrosensitivity | 26 |
| eosinophilia | 4 |
| exaggerated sense of smell | 47 |
| exercise intolerance | 25, 75, 88, 90, 24, 87 |
| eye problems | 33, 3 |
| eyesight | 53 |
| fasciculations | 45 |
| fatigue | 13, 18, 24, 57, 10, 7, 72, 82, 92, 51, 68, 76, 36, 3, 48 |
| feeling faint | 3 |
| fluoride intoxication | 4 |
| food intolerances | 40, 39 |
| formication | 15 |
| full body pain | 89 |
| gastrointenstinal issues | 94 |
| gi | 3, 82, 68, 64, 72 |
| gi pain | 79 |
| headache | 48, 52, 72 |
| hearing loss | 73 |
| hearing sensitivity | 91 |
| heart palpitations | 56 |
| high histone antibodies | 83 |
| hot and cold | 92 |
| hyperglycemia | 10 |
| hyperinsulinemia | 39 |
| hyperreflexia | 65 |
| hypertension | 21, 8, 3 |
| hyperthyroidism | 16 |
| hypertonicity | 77 |
| hypoglycemia | 6, 39 |
| hyponatremia | 72 |
| hypothyroidism | 29 |
| insomnia | 8, 21, 67, 49, 63, 64, 48, 24, 79, 87 |
| itching | 73 |
| joint damage | 94 |
| joint pain | 93, 57 |
| joints | 30, 43, 50, 62, 69, 31, 51, 6, 40 |
| kidney injury | 7, 29 |
| kidney pain | 50 |
| left neck pain | 77 |
| leg spasms | 8 |
| ligament tear | 2 |
| liver injury | 29 |
| low back pain | 45 |
| lower extremity atrophy | 45 |
| lung hyperexpansion | 39 |
| lupus | 83 |
| malaise | 18 |
| mast cell disease | 29, 6 |
| mcas | 6 |
| memory loss | 33 |
| multifocal pain | 70 |
| muscle | 16, 28, 14, 43, 52, 80, 18, 45 |
| muscle ache | 90, 27 |
| muscle aches | 72 |
| muscle atrophy | 65, 92 |
| muscle fatigue | 75, 9, 24, 25, 38, 7, 62, 3 |
| muscle pain | 34, 88, 55, 57, 58, 7 |
| muscle pull | 75 |
| muscle spasms | 91 |
| muscle stiffness | 64 |
| muscle tear | 2 |
| muscle tightness | 75 |
| muscle total | 2, 3, 5, 7, 9, 12, 13, 14, 16, 18, 22, 24, 25, 27, 28, 34, 38, 39, 42, 43, 45, 52, 55, 57, 58, 62, 64, 65, 66, 72, 75, 80, 87, 88, 90, 91, 92 |
| muscle wasting | 9, 12, 87, 39, 5, 62 |
| muscle weakness | 66, 91, 22 |
| musculoskeletal pain | 13 |
| myalgias | 12, 92 |
| myopathy | 70 |
| nausea | 27, 52 |
| nerve | 36 |
| nerve damage | 36 |
| nerve pain | 14, 40, 48, 18, 94 |
| nervous system | 19, 71, 51 |
| nervous system total | 1, 2, 3, 5, 7, 8, 14, 15, 18, 19, 26, 27, 33, 36, 37, 40, 41, 42, 45, 46, 47, 48, 50, 53, 55, 63, 64, 66, 67, 69, 70, 71, 72, 78, 79, 81, 82, 83, 86, 87, 90, 94 |
| neurological | 6, 3 |
| neuropathy | 5, 50, 70, 78, 19, 37, 41, 63, 66, 14, 33, 64, 67, 45, 82 |
| neuropsychiatric | 56 |
| neuropsychological | 17, 18 |
| neutropenia | 4 |
| night sweats | 92 |
| numb | 87 |
| numb extremities | 47, 87 |
| numbness | 15, 90 |
| pain | 43, 63, 54, 22 |
| pain total | 7, 13, 14, 18, 20, 21, 22, 25, 26, 29, 32, 34, 38, 40, 43, 44, 45, 48, 50, 52, 54, 55, 57, 58, 63, 64, 70, 77, 78, 79, 80, 84, 87, 88, 89, 90 |
| palpitations | 65 |
| panic attacks | 67, 24, 49 |
| paranoia | 67 |
| paresthesia | 55 |
| pericardial effusion | 47 |
| peripheral nervous system | 71, 86, 69, 2 |
| peripheral neuropathy | 45, 82, 64 |
| photosensitivity | 29 |
| physical | 23 |
| psychiatric | 17, 3, 8, 18, 2 |
| psychiatric problems | 66 |
| psychological | 23 |
| redness | 73 |
| ripped tendons | 76 |
| rotator cuff tear | 85 |
| seizures | 65 |
| severe pain | 38, 44 |
| shaking | 21, 3, 18 |
| shooting pain | 90 |
| shoulder blade pain | 20 |
| shoulder pain | 78 |
| sibo | 33 |
| sleep apnea | 75 |
| small fiber neuropathy | 37, 83 |
| sore tendons | 42 |
| stabbing pain | 64 |
| stiff muscles | 42 |
| sucide | 56 |
| suicide | 49 |
| suicide attempt | 22 |
| swallowing trouble | 20, 62 |
| swollen kidneys | 7 |
| tachycardia | 54, 29 |
| tend | 69 |
| tendinopathy | 15, 31, 79 |
| tendon | 62, 14, 49, 54, 60, 88, 90, 12, 48, 74, 43, 80, 18 |
| tendon damge | 36 |
| tendon pain | 7, 25, 26, 94, 55 |
| tendon rupture | 2 |
| tendon tearing | 41 |
| tendon tears | 29 |
| tendon total | 2, 7, 12, 14, 15, 16, 18, 25, 26, 29, 30, 31, 36, 41, 42, 43, 48, 49, 52, 54, 55, 57, 60, 62, 63, 64, 68, 72, 74, 76, 79, 80, 88, 90, 94 |
| tendonitis | 2, 16, 63, 68, 57, 64 |
| thumb joint pain | 52 |
| thyroid | 6, 67 |
| tingling | 46, 7, 42, 72, 53, 5, 90, 3 |
| tinnitus | 5, 19, 26, 36, 73, 91, 30, 48, 72, 87 |
| tmj cartilage disintegration | 35 |
| tremors | 92 |
| used oxygen | 13, 14, 26 |
| uti | 79 |
| vaginal/rectal cramps | 44 |
| vertigo | 19, 36 |
| vestibular issues | 73 |
| visual issues | 67, 68, 76, 79 |
| vomiting | 22 |
| walking difficulty | 60, 74, 87, 15, 34, 66, 38, 54, 90, 88, 51 |
| weakness | 92 |
| weight loss | 40, 8 |
| wheelchair | 74, 2, 6, 25, 65 |
| white brain matter (mri) | 79 |
| worsening symptoms | 89 |
## Including Plots```
Note that the echo = FALSE parameter was added to the code chunk to prevent printing of the R code that generated the plot.