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Burrows Wheeler Algorithm Assignment Help


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What is burrows wheeler Algorithm?


1) The burrows and wheeler transform (BWT) is a block sorting lossless and reversible data transform.

2) The transformed text can be better compressed with fast locally adaptive algorithms, such as run length encoding in combination with Huffman coding.


bwtrew(o, [m..n], p)
list <- get_Intervals([m..n])
while list not empty do
[lb..rb] <- head(list)
if lb = rb or S[SA[lb] + l + 1] =  S[SA[rb] + l + 1] then
pos <- SA[lb] + l + 1
if lb = rb then
if pos > n  then
pos <- (pos - n)
SApower rev[k] <- (n - pos + 1)
c <- S[pos]
for q <- o to (o + rb - lb) do
BWT power rev [q] <- c
count[c] <- count[c] + 1
LF power rev [q] <- count[c]
else
bwtrev (o, [lb..rb], p+1)
o <- (o + rb - lb + 1)
if list not empty then
LCP power rev [o] <- l


Reversible permutation used originally in compression:




$ b d b b   d h
$ b d b b d h



b b d h   $ b d
b b d h $ b d



b d b b   d h $
b d b b d h $

b d b b d h $

b d h $ b d b

b d h $ b d b

h d $ b b b d
T
d b b d   h $ b
d b b d h $ b
BWT(T)


d h $ b d b b
d h $ b d b b



h $ b d b b   d
h $ b d b b d



Burrows wheeler matrix
Last column



Inversing Burrows – Wheeler transform


B M M C $ B B







B$CBOBO
$CBOBOB
OB$CBOB
B$CBOBO
OBOB$CBSORTBOB$CBO
CBOBOB$

BOBOB$C
$CBOBOB
CBOBOB$
BOB$CBO
OB$CBOB
BOBOB$C
OBOB$CB



Example: sort the given sequence


IPNPMPH.VT$
PNPMPH.VT$I
NPMPH.VT$IP
PMPH.VT$IPN
MPH.VT$IPNP
PH.VT$IPNPM
H.VT$IPNPMP
.VT$IPNPMPH
VT$IPNPMPH.
T$IPNPMPH.V
$IPNPMPH.VT


Answer: the sorted list -

$IPNPMPH.VT
.VT$IPNPMPH
H.VT$IPNPMP
IPNPMPH.VT$
MPH.VT$IPNP
NPMPH.VT$IP
PH.VT$IPNPM
PMPH.VT$IPN
PNPMPH.VT$I
T$IPNPMPH.V
VT$IPNPMPH.


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