cbg-ethz shorah issues - Githubissues

cbg-ethz / shorah

Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)

GNU General Public License v3.0

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issues

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is shorah same as lofreq?

#87 ibseq opened 2 years ago
4
Switch to poetry/pybind11

#86 spaceben closed 2 years ago
0
Smalt command not found

#85 Ruchank1 opened 3 years ago
0
b2w rewrite to Python

#84 spaceben opened 3 years ago
0
Error running Amplicon with diversity option

#83 XU-Nuo opened 3 years ago
3
UnboundLocalError: local variable 'new_clusters' referenced before assignment

#82 bernt-matthias opened 3 years ago
0
Report long deletions complying with the VCF format

#81 sposadac closed 3 years ago
0
Insertion and deletion on the same haplotype

#80 zmx21 closed 4 years ago
2
List index out of range

#79 woodford87 closed 4 years ago
3
Shorah: UnboundLocalError: local variable 'end' referenced before assignment

#78 ptapiaisp opened 4 years ago
1
HTSlib 1.10 causes Segfaults

#77 DrYak closed 4 years ago
1
Conda package: no version file

#76 stefanches7 opened 4 years ago
4
ShoRAH: Illumina reads ; influenza

#75 LauraVP1994 opened 4 years ago
7
Fix double counting of consensus sequences

#74 sposadac closed 4 years ago
1
Make discovery of C++ dependencies more robust

#73 kpj closed 4 years ago
1
Conda package for 1.99 not working properly

#72 heylf opened 4 years ago
13
Multiple fixes to ShoRAH

#71 DrYak closed 4 years ago
0
Adding contig info to the metadata in the VCF output file

#70 sposadac closed 4 years ago
0
contig included in VCF meta; base dir path adjusted

#69 NBMueller closed 4 years ago
0
Make travis happy again

#68 DrYak closed 4 years ago
1
VCF output implemented

#67 NBMueller closed 4 years ago
9
output interpretation

#66 KabitaBaral1 opened 5 years ago
3
latest version no configure file

#65 dcm9123 closed 5 years ago
5
dec.py error "line 582, in main (kp, proposed[kp][0] / proposed[kp][1]))"

#64 KabitaBaral1 closed 5 years ago
1
Long reads - nanopore

#63 Psy-Fer opened 5 years ago
5
Fix issue #53 -- "local variable 'prop'"

#62 DrYak closed 5 years ago
0
Error running Shorah.py, and seeking for help

#61 JingniHe opened 5 years ago
2
No module named 'shorah_snv'

#60 yeemey closed 5 years ago
5
results not reproducible even random seed '-S' is set

#59 jeffchen2000 opened 5 years ago
2
Add SNV as sub-command to the command line and handle errors related to empty windows

#58 sposadac closed 6 years ago
2
overwrite previous results?

#57 jeffchen2000 opened 6 years ago
1
what are the "-----"

#56 jeffchen2000 closed 6 years ago
1
Allocaholic - the 250 millions malloc killer

#55 DrYak closed 4 years ago
7
Fixing behaviour with indels

#54 DrYak closed 6 years ago
1
dec.py: "local variable 'prop' referenced before assignment"

#53 derrickhlin opened 6 years ago
4
With htslib

#52 DrYak closed 6 years ago
24
Search for executables in PATH

#51 ozagordi closed 6 years ago
4
handle weird chr in fasta headers - fix issue #32

#50 DrYak closed 6 years ago
8
New web page

#49 ozagordi opened 6 years ago
3
Restore custom install of exe files

#48 ozagordi closed 6 years ago
13
Remove bundled ancient samtools 0.1.19 and move to building against upstream htslib

#47 SoapZA closed 6 years ago
10
Adding gnulib git-version-gen

#46 DrYak closed 6 years ago
1
Meson switch

#45 ozagordi closed 6 years ago
36
RuntimeError: maximum recursion depth exceeded in cmp

#44 janoppelt closed 6 years ago
1
ShoRAH.py error

#43 woodford87 closed 6 years ago
2
fixing 'use of uninitialized memory' bug

#42 DrYak closed 6 years ago
10
weird values in fil output

#41 DrYak closed 6 years ago
1
Applying ShoRAH to metagenomic samples

#40 yorickdevries closed 6 years ago
3
Shorah throwing error for PacBio bam files

#39 zusman closed 6 years ago
3
IndexError exception raised due to reads.fas being empty

#38 terrycojones closed 6 years ago
3