|
bin
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
src
|
2025-04-15
|
Rastas Pasi M A
|
[78dfa4]
automatic noChromosome
|
|
COPYING
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
agplinks.awk
|
2021-04-01
|
Pasi Rastas
|
[e400b0]
numThreads, chain, etc.
|
|
agplinks2.awk
|
2023-06-30
|
Rastas Pasi M A
|
[96c0ba]
--contigMode in wrappers
|
|
annotateMarkers.awk
|
2025-04-15
|
Rastas Pasi M A
|
[78dfa4]
automatic noChromosome
|
|
barcoderegions.awk
|
2022-01-20
|
Pasi Rastas
|
[705ab4]
speed,10x,hic,paf2chain
|
|
binnorm2_prox.awk
|
2022-06-15
|
Pasi Rastas
|
[a5c867]
Minor fixes
|
|
binnorm_prox.awk
|
2022-06-15
|
Pasi Rastas
|
[a5c867]
Minor fixes
|
|
bufferWrite.awk
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
chain2gaps.awk
|
2025-04-15
|
Rastas Pasi M A
|
[78dfa4]
automatic noChromosome
|
|
chainpaf.awk
|
2022-02-02
|
Pasi Rastas
|
[e31d43]
plot_marey.R
|
|
cleanmap.awk
|
2019-09-10
|
Rastas Pasi M A
|
[f716b6]
new commit
|
|
contigLength.awk
|
2019-12-11
|
Rastas Pasi M A
|
[c247b8]
Map2Bed replacing cleanmap.awk+joinintervals.awk
|
|
cutBed.awk
|
2021-10-13
|
Pasi Rastas
|
[c24156]
lepanchor_wrappper3.sh
|
|
cutBed_fixN.awk
|
2021-10-13
|
Pasi Rastas
|
[c24156]
lepanchor_wrappper3.sh
|
|
cutLa.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
cuts2paf.awk
|
2024-08-29
|
Rastas Pasi M A
|
[e01d9f]
cuts2paf
|
|
depth2like.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
errorIntervals.awk
|
2022-06-15
|
Pasi Rastas
|
[a5c867]
Minor fixes
|
|
errorIntervals2.awk
|
2022-06-15
|
Pasi Rastas
|
[a5c867]
Minor fixes
|
|
fastq2fasta.awk
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
filter_hic.awk
|
2025-04-15
|
Rastas Pasi M A
|
[78dfa4]
automatic noChromosome
|
|
findFullHaplotypes.awk
|
2020-09-23
|
Pasi Rastas
|
[2a3a95]
Proximity data
|
|
findFullHaplotypes3.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
gapfill.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
gaps2agp.awk
|
2024-08-22
|
Pasi Rastas
|
[b324b8]
java locale fix
|
|
getgaps.awk
|
2025-03-20
|
Pasi Rastas
|
[607af1]
liftover score fix, Map2Bed, etc.
|
|
hic.awk
|
2022-02-02
|
Pasi Rastas
|
[e31d43]
plot_marey.R
|
|
joinIntervals.awk
|
2019-09-10
|
Rastas Pasi M A
|
[f716b6]
new commit
|
|
ld.awk
|
2023-06-20
|
Rastas Pasi M A
|
[4bc8a9]
ld.awk
|
|
lepanchor_chain.sh
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
lepanchor_chain2.sh
|
2025-03-20
|
Pasi Rastas
|
[607af1]
liftover score fix, Map2Bed, etc.
|
|
lepanchor_chain_mask.sh
|
2023-06-30
|
Rastas Pasi M A
|
[96c0ba]
--contigMode in wrappers
|
|
lepanchor_remap.sh
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
lepanchor_wrapper.sh
|
2024-05-21
|
Pasi Rastas
|
[390a50]
wrappers with markerSupport, ChainPaf
|
|
lepanchor_wrapper2.sh
|
2024-05-21
|
Pasi Rastas
|
[390a50]
wrappers with markerSupport, ChainPaf
|
|
lepanchor_wrapper3.sh
|
2024-05-21
|
Pasi Rastas
|
[390a50]
wrappers with markerSupport, ChainPaf
|
|
liftover.awk
|
2020-02-07
|
Rastas Pasi M A
|
[831308]
makefasta, makeagp2, liftover
|
|
longread.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
longsubread.awk
|
2023-04-27
|
Rastas Pasi M A
|
[366eba]
ChainPaf
|
|
makeagp.awk
|
2019-12-19
|
Rastas Pasi M A
|
[31d86e]
chain update
|
|
makeagp2.awk
|
2022-01-20
|
Pasi Rastas
|
[705ab4]
speed,10x,hic,paf2chain
|
|
makeagp3.awk
|
2024-08-22
|
Pasi Rastas
|
[b324b8]
java locale fix
|
|
makeagp_full.awk
|
2019-11-20
|
Pasi Rastas
|
[15e233]
makeagp
|
|
makeagp_full2.awk
|
2022-01-20
|
Pasi Rastas
|
[705ab4]
speed,10x,hic,paf2chain
|
|
makefasta.awk
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
mask.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
maskCovChain2.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
maskfasta.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
normalise.awk
|
2022-01-20
|
Pasi Rastas
|
[705ab4]
speed,10x,hic,paf2chain
|
|
notUsed.awk
|
2022-05-12
|
Pasi Rastas
|
[d84669]
not used
|
|
paf2chain.awk
|
2023-11-21
|
Pasi Rastas
|
[3b6ac0]
small fixes
|
|
paf2chain_fast.awk
|
2024-12-12
|
Pasi Rastas
|
[429260]
ChainPaf, etc.
|
|
pair2single.awk
|
2024-05-21
|
Pasi Rastas
|
[390a50]
wrappers with markerSupport, ChainPaf
|
|
perm.awk
|
2022-05-12
|
Pasi Rastas
|
[d84669]
not used
|
|
pickbed.awk
|
2021-04-21
|
Pasi Rastas
|
[e2be71]
Lep-Anchor wrapper ver 2
|
|
pickorientation.awk
|
2021-04-21
|
Pasi Rastas
|
[e2be71]
Lep-Anchor wrapper ver 2
|
|
plot_marey.R
|
2022-05-12
|
Pasi Rastas
|
[d84669]
not used
|
|
propagate.awk
|
2021-02-16
|
Pasi Rastas
|
[cbed9d]
proximity, propagate
|
|
propagate2.awk
|
2021-02-16
|
Pasi Rastas
|
[cbed9d]
proximity, propagate
|
|
propagate4.awk
|
2021-04-21
|
Pasi Rastas
|
[e2be71]
Lep-Anchor wrapper ver 2
|
|
prox10x.awk
|
2022-01-20
|
Pasi Rastas
|
[705ab4]
speed,10x,hic,paf2chain
|
|
prune.awk
|
2022-06-15
|
Pasi Rastas
|
[a5c867]
Minor fixes
|
|
refFasta.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
removeContigs.awk
|
2022-05-12
|
Pasi Rastas
|
[d84669]
not used
|
|
removeHaplotypes.awk
|
2022-12-24
|
Pasi Rastas
|
[394256]
EstimateRecombination
|
|
removeOverlaps.awk
|
2022-12-24
|
Pasi Rastas
|
[394256]
EstimateRecombination
|
|
reverseLA.awk
|
2025-02-25
|
Rastas Pasi M A
|
[00103b]
FitStepFunction usage and snps
|
|
reversePaf.awk
|
2023-04-27
|
Rastas Pasi M A
|
[366eba]
ChainPaf
|
|
sortchain.awk
|
2024-08-22
|
Pasi Rastas
|
[b324b8]
java locale fix
|
|
sortpaf.awk
|
2022-02-02
|
Pasi Rastas
|
[e31d43]
plot_marey.R
|
|
split2contigs.awk
|
2025-03-20
|
Pasi Rastas
|
[607af1]
liftover score fix, Map2Bed, etc.
|
|
support2intervals.awk
|
2024-05-21
|
Pasi Rastas
|
[390a50]
wrappers with markerSupport, ChainPaf
|
|
tetrad.R
|
2025-02-25
|
Rastas Pasi M A
|
[00103b]
FitStepFunction usage and snps
|
|
toCompressed.awk
|
2023-06-20
|
Rastas Pasi M A
|
[73143d]
new wrappers
|
|
umi.awk
|
2022-01-20
|
Pasi Rastas
|
[705ab4]
speed,10x,hic,paf2chain
|
