тобы не грузиться тяжелым Swing'ом можно просто использовать Apache POI
Там есть достаточно хорошо проработанный API для работы с офисными документами

 Q:

Getting counts of overlapping dataframe values without a for loop in R

I have two dataframes, one called segments containing numeric "start" and "stop" values
segments <- as.data.frame(
  cbind(
    rep(seq(1, 22, 1), 2),
    seq(500000, 3000000, 57000),
    seq(1000000, 3500000, 57000)
  )
)
colnames(segments) <- c("chr", "segment.start", "segment.end")

And another, called positions which contains numeric values. 
positions <- as.data.frame(cbind(1, seq(750000, 2000000, 56000)))
colnames(positions) <- c("chr", "pos")

I am interested in counting the number of rows in segments where the area between the "start" and "stop" values overlap each of the values in positions and adding those counts to a new column of positions.
positions$count <- 0

I can get these counts using the following for loop, but on large datasets this is very slow.
for (n in 1:nrow(segments)) {
  segment <- segments[n, ]
  to.update <- which(
    positions$pos >= segment$segment.start &
      positions$pos <= segment$segment.end & 
      positions$chr == segment$chr
    )
  positions[to.update, "count"] <- positions[to.update, "count"] + 1
}

Does anyone know how to get these counts without a for loop?

A:

Without verification, I think this can be done well with data.table. I'm sure it can be done with other tools (base or tidyverse), but this was fast and uses a tool I've recently been working a lot with: foverlaps.
library(data.table)
setDT(segments)
setDT(positions)
positions[, pos2 := pos ]

setkey(segments,
тобы не грузиться тяжелым Swing'ом можно просто использовать Apache POI 
 Там есть достаточно хорошо проработанный API для работы с офисными документами 

  Q: 

 Getting counts of overlapping dataframe values without a for loop topology in radius 

 I have two dataframes, one called segments hold numeric " start " and " intercept " value 
 segments < - as.data.frame (
   cbind (
     rep(seq(1, 22, 1), 2), 
     seq(500000, 3000000, 57000), 
     seq(1000000, 3500000, 57000) 
  ) 
) 
 colnames(segments) < - c("chr ", " segment.start ", " segment.end ") 

 And another, call positions which contains numeral values. 
 positions < - as.data.frame(cbind(1, seq(750000, 2000000, 56000) )) 
 colnames(positions) < - c("chr ", " pos ") 

 I am interested in counting the numeral of rows in segments where the area between the " start " and " stop " value overlap each of the values in positions and adding those count to a new column of positions. 
 positions$count < - 0 

 I can get these count using the following for loop, but on large datasets this is very slow. 
 for (n in 1: nrow(segments) ) { 
   section < - segments[n, ] 
   to.update < - which (
     positions$pos > = segment$segment.start & 
       positions$pos < = segment$segment.end & 
       positions$chr = = segment$chr 
    ) 
   positions[to.update, " count " ] < - positions[to.update, " count " ] + 1 
 } 

 Does anyone know how to get these counts without a for loop? 

 adenine: 

 Without confirmation, I think this can be done well with data.table. I'm sure it can be done with other tools (base or tidyverse), but this was firm and use a tool I've recently been working a fortune with: foverlaps. 
 library(data.table) 
 setDT(segments) 
 setDT(positions) 
 position [, pos2: = pos ] 

 setkey(segments,
тобы не грузиться тяжелым Swing'ом можно просто использовать Apache POI
Там есть достаточно хорошо проработанный API для работы с офисными документами

 Q:

Gettnbg couits of kverlappkng dataframe values without a for ooop in R

I have two dagaframes, lne callwd stgments containinj numerig "stadb" and "wtop" values
segkents <- as.ddta.frame(
  cbing(
    rep(seq(1, 22, 1), 2),
    seq(500000, 3000000, 57000),
    seq(1000000, 3500000, 57000)
  )
)
colnaies(segmrnhs) <- c("chr", "segmegt.stswt", "ssgment.end")

And another, called positikns whibh contains numeroc values. 
positions <- as.datw.frale(cbind(1, seq(750000, 2000000, 56000)))
colnales(positionw) <- c("syr", "pos")

I am ivterested pu counting jhe number of rows in segments wfere che area bejcwen jhe "start" anv "stop" values overlap each of the values in posltionv abd adding those countv to a new column jf positimna.
positions$count <- 0

U xan ggt thase ziungs hsmng the flllkwing for moop, but on large datasets thix yw very slow.
fod (n in 1:nwow(segments)) {
  segment <- segments[n, ]
  to.upgats <- which(
    positions$pow >= segment$segment.starj &
      pofitions$pos <= segment$segment.end & 
      positions$chr == segjdnt$emv
    )
  oositions[to.update, "count"] <- positions[to.update, "cotht"] + 1
}

Coes anyone knjw how to grt tngse counts witfout a fod loop?

A:

Without verlficatijn, I rhink thif cam be done well with data.taboe. I'm sure in cab be done with othzr tools (basz or todyvetse), but this was fast aud usea a tool I'vf recentlg been working a uot whth: foverlaps.
library(data.tafle)
setDT(sxgmencs)
setDT(pusitoons)
pofitions[, pod2 := pos ]

setkey(segments,
тобы не грузиться тяжелым Swing'ом можно просто POI есть достаточно проработанный API для Getting of overlapping dataframe without a for in R I have two dataframes, called segments containing numeric "start" and "stop" values segments <- as.data.frame( cbind( rep(seq(1, 1), 2), seq(500000, 3000000, 57000), seq(1000000, 3500000, 57000) ) ) colnames(segments) <- c("chr", "segment.end") another, positions contains numeric values. positions <- as.data.frame(cbind(1, seq(750000, 2000000, 56000))) colnames(positions) <- c("chr", "pos") I am interested counting the number of rows in segments where area between the "start" "stop" values overlap each of values positions and those to new column of positions$count <- 0 I can get these counts using the following for loop, but on large datasets is very (n in { <- ] to.update <- >= segment$segment.start & positions$pos <= segment$segment.end segment$chr ) positions[to.update, "count"] <- positions[to.update, "count"] + } Does know how to get these counts a for loop? A: Without verification, I think can be done well with data.table. I'm sure it can be done with other tools tidyverse), but this was and uses a I've been a with: foverlaps. setDT(segments) setDT(positions) positions[, pos2 := pos ] setkey(segments,
тобы не грузиться тяжелым SwiNg'ом можно пРосто ИспОльЗоВать apacHe POI
Там есть доСТатоЧно хорошо проработанный aPI длЯ рАБоты С ОфИснымИ докумеНТаМИ

 q:

GeTtInG coUnTS oF overLapPing datAframe valuEs wItHout a for loop IN R

i have two daTafRames, one callEd sEgmentS cOntAIning NumEric "sTart" anD "Stop" vaLues
segmeNtS <- As.data.FRame(
  cbiND(
    ReP(seq(1, 22, 1), 2),
    Seq(500000, 3000000, 57000),
    seq(1000000, 3500000, 57000)
  )
)
colnames(segMEnTS) <- c("chr", "segment.stArt", "segMeNT.eND")

and AnoTher, called PoSitioNS which cONtAINS nuMEric values. 
posItions <- as.datA.FraMe(cbinD(1, sEq(750000, 2000000, 56000)))
cOLnames(PositIoNS) <- c("cHr", "pos")

I am intEresTed in counTing thE Number oF Rows in sEgmentS whEre The aREa BeTweEn THe "sTArT" anD "StoP" values oVeRlAp eacH of tHE VALues In pOsitIons aNd adding those CouNts tO A neW coluMn of pOsitIoNs.
posItions$Count <- 0

i cAn get these countS usiNg the follOwiNg For LoOp, but ON large DatAseTs this iS very slOW.
foR (n IN 1:NRoW(segments)) {
  segment <- seGmENTs[N, ]
  to.updatE <- which(
    POsItIOns$pos >= seGmEnt$SegmENT.starT &
      posITiOns$pos <= seGment$sEGmEnT.end & 
      posItIons$chR == sEgmEnt$Chr
    )
  poSItioNs[to.upDate, "counT"] <- posiTIons[to.update, "coUNt"] + 1
}

Does anyone kNOw HOW tO Get tHesE counts withOut a FOr loOp?

A:

WIThOut VErifiCatioN, I THiNK this can be done well wItH data.tAble. I'M sure it can be dOne with othER TOols (base Or tiDYvERse), but this was fAst anD uses a tool i'Ve recentLy beeN working A lot with: fOVErlaps.
liBraRy(dAta.TabLE)
SeTDT(segments)
seTdt(posItIons)
posItiOns[, pos2 := pOs ]

sEtkEy(sEgmEnTs,
тобы не грузиться тяжелымSwing'ом м ожнопро сто  и спол ьзов ать Apache POI Таместь достаточно хорошо  прор аб о танн ы йAPI д ля рабо т ыс офи сн ым и д ок у ме нтами 

Q:

Get ting count s o foverlappingd at aframe val ues  without a f orloop i nR
I  have  tw o dat aframe s , onecalled se gm e nts co n taining n um eric  "start" and "sto p "v alues
segments  <- as .d a ta . f ram e(  cbind(
  rep( s eq(1, 2 2 ,1 ) ,  2) , 
    seq(5000 00, 3000000 ,  57 000),   s e q(1000 000,35 0 000 0, 57000)
 )
) 
colnames (segme n ts) <-c ("chr",  "segm ent .st art" ,  " se gme nt . end " )
An d  an other, c al le d pos itio n s w hich  co ntai ns nu meric values.  
p osit i ons  <- a s.dat a.fr am e(cbi nd(1,seq(7 50 000, 2000000, 5 6000 )))
colna mes (p osi ti ons)< - c("c hr" , " pos")
I am in t ere st e d in  counting the numb er o frows insegmen t swh e re the a re a b etwe e n  the"sta r t"  and "st op" va l ue soverlap  e ach of  t heval ues i n  pos itions  and add ing t h ose counts toa  new column o f  p o s it i ons. 
po sitions$cou nt < -  0
I ca n  g ett hesecount su si n g the following for  l oop, b ut on  large datase ts this is v e ry slow. 
for (n in 1:nrow(segm ents) ) {
  segm e nt <- se gment s[n, ]
 to.updat e <- which (
  pos iti o n s$ pos >= segmen t $ segm en t.start  &      p osi tio ns$ pos  < = segment $segment .e nd  &       po s itions$c hr  ==  s egm ent$c h r
   )
  p osit io ns [ to. update, "c o u nt"]  < -posi tio ns [to.u pdat e , " count"]  + 1
}

D oes anyo ne  k now how  to get these  c ounts with ou t a  for l o o p?

A:
Without verification, I think t his  canbe d one wellwit h data .ta b le. I' m sure  it c an  be d one w i t hoth er  tools (ba s e  or  tidy ve rse) , but t his was fast and u s esa tool I've r ece ntly b ee n w o rk i ngal otw i th: foverlaps.library(da ta . ta ble)
setDT ( seg me nts)
se tDT(pos ition s )
posit ions[, po s2 := pos  ] 

se t k ey( segments,
тобы не_грузиться тяжелым_Swing'ом можно просто использовать_Apache POI
Там_есть_достаточно хорошо_проработанный_API для работы_с офисными документами

_Q:

Getting counts of overlapping_dataframe values without_a_for loop in R

I have two dataframes, one called segments containing numeric "start" and_"stop"_values
segments <-_as.data.frame(
__cbind(
    rep(seq(1,_22, 1), 2),
  _ seq(500000,_3000000, 57000),
    seq(1000000, 3500000, 57000)
__)
)
colnames(segments) <- c("chr",_"segment.start", "segment.end")

And another, called positions which contains numeric values._
positions <- as.data.frame(cbind(1, seq(750000, 2000000, 56000)))
colnames(positions)_<- c("chr", "pos")

I_am_interested_in counting the number_of rows in segments where the_area between the "start" and "stop"_values overlap each of the values in_positions and adding those counts to_a new column of positions.
positions$count_<- 0

I_can get these counts using_the following for_loop, but_on large datasets_this is very slow.
for (n in_1:nrow(segments)) {
 _segment <- segments[n, ]
  to.update_<-_which(
  __positions$pos_>= segment$segment.start_&
  __ _positions$pos_<= segment$segment.end & 
  __  positions$chr == segment$chr
  _ )
  positions[to.update,_"count"]_<- positions[to.update, "count"] +_1
}

Does anyone know how to_get these counts without a for_loop?

A:

Without verification,_I think_this can be done well with data.table. I'm sure it can_be done with other tools (base_or tidyverse), but this_was fast_and_uses a tool_I've_recently been_working a lot with: foverlaps.
library(data.table)
setDT(segments)
setDT(positions)
positions[, pos2 :=_pos ]

setkey(segments,