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jpuritz
/
dDocent
a bash pipeline for RAD sequencing
ddocent.com
MIT License
52
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41
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Info about the number of mapped reads etc.
#90
Anto007
closed
3 months ago
5
Jpuritz patch 1
#89
jpuritz
closed
3 months ago
1
Question about ErrorCount.sh
#88
eprdz
closed
3 months ago
1
#'head: cannot open 'reference.fasta' for reading: No such file or directory' while running denovo assembly
#87
santoshkumarrana
closed
3 months ago
3
sh: /dev/tty: No such device or address
#86
Anto007
closed
3 months ago
1
Genomic interval creation failed
#85
tamsinlh
opened
1 year ago
3
replace ls and rm with find
#84
pdimens
opened
1 year ago
0
too many arguments for ls and rm
#83
pdimens
opened
1 year ago
0
missing data in merged vcf file
#82
alxcmrn
closed
3 months ago
1
clarify manual installation
#81
pdimens
closed
2 years ago
0
popmap creation logic
#80
pdimens
closed
2 years ago
0
ulimit silent error (bug)
#79
pdimens
closed
3 months ago
1
remove duplicates prior to variant calling
#78
pdimens
closed
3 years ago
2
fastp v 0.19.5 issue
#77
atfields
closed
3 years ago
0
Suggested parameters for bam filtering
#76
atfields
opened
3 years ago
5
Fixed file name missing error
#75
llalon
closed
3 years ago
0
update install and runtime deps, add bedops merge
#74
pdimens
closed
3 years ago
3
Spruce up readme
#73
pdimens
closed
3 years ago
2
performance bottleneck
#72
pdimens
closed
3 years ago
1
Very inefficent scan of full reference genome
#71
ne1s0n
closed
3 years ago
2
CD-HIT runs forever / never finishes
#70
mscharmann
closed
3 years ago
2
miniconda recipe with samtools bug?
#69
j-a-thia
closed
3 years ago
1
Use bedops instead of bedools merge for memory efficiency
#68
ne1s0n
closed
3 years ago
5
ReferenceOpt.sh - kopt.data output
#67
j-a-thia
closed
3 years ago
1
please make a new release on github
#66
bernt-matthias
closed
3 years ago
1
Program stuck in using BWA mapping reads
#65
Liut035
closed
3 years ago
2
Update dDocent_filters final prompt
#64
pdimens
closed
4 years ago
0
Downgrade conda vcftools version dependency
#63
pdimens
closed
4 years ago
2
Error with main script - EOF management
#62
ne1s0n
closed
4 years ago
1
Update RefMapOpt.sh
#61
TomaszSuchan
closed
4 years ago
1
RefMapOpt error
#60
TomaszSuchan
closed
4 years ago
1
Fastp not getting number of processors
#59
kubu4
closed
4 years ago
3
Simple Suggestions To Increase Speed of Freebayes
#58
cbird808
opened
4 years ago
11
awk program choice
#57
wirawan0
closed
4 years ago
1
update fastp cut_front and cut_tail args
#56
pdimens
closed
4 years ago
0
parallel --env <function> throws error on some systems
#55
cbird808
opened
4 years ago
1
`getAssemblyInfo` is missing a closing `}`
#54
cbird808
closed
4 years ago
1
RPE Uniq Seqs Correct?
#53
cbird808
closed
4 years ago
0
Adaptive trimming of adapters with fastp
#52
chollenbeck
closed
3 years ago
3
error in trimming
#51
nclowell
closed
4 years ago
1
Changed the hard coded processor count for pearPM in line 1091 to $NUMProc to be consistent with the other invocations of pearPM
#50
relshire
closed
4 years ago
0
PEAR is not accessible or licensed under a software iicense. Please consider substituting PANDAseq.
#49
relshire
closed
4 years ago
1
Conda dDocent recipe has incorrect FreeBayes
#48
pdimens
closed
4 years ago
1
cannot see how config file improperly configured
#47
nclowell
closed
4 years ago
6
Change order of bwa mem parameters
#46
TomaszSuchan
closed
5 years ago
1
LowerMemVersion
#45
jpuritz
closed
5 years ago
1
early organization
#44
pdimens
closed
4 years ago
3
Early steps of configured organization
#43
pdimens
closed
4 years ago
0
"Checking for required software" not operating as expected
#42
mstuart1
closed
5 years ago
1
change trim logging
#41
pdimens
closed
5 years ago
3
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