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

39 stars 14 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

is shorah same as lofreq?

#87 ibseq opened 1 year ago
4
Switch to poetry/pybind11

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

#85 Ruchank1 opened 2 years ago
0
b2w rewrite to Python

#84 spaceben opened 2 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 3 years ago
2
List index out of range

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

#78 ptapiaisp opened 3 years ago
1
HTSlib 1.10 causes Segfaults

#77 DrYak closed 3 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 3 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 4 years ago
3
latest version no configure file

#65 dcm9123 closed 4 years ago
5
dec.py error "line 582, in main (kp, proposed[kp][0] / proposed[kp][1]))"

#64 KabitaBaral1 closed 4 years ago
1
Long reads - nanopore

#63 Psy-Fer opened 4 years ago
5
Fix issue #53 -- "local variable 'prop'"

#62 DrYak closed 4 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 5 years ago
2
overwrite previous results?

#57 jeffchen2000 opened 5 years ago
1
what are the "-----"

#56 jeffchen2000 closed 5 years ago
1
Allocaholic - the 250 millions malloc killer

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

#54 DrYak closed 5 years ago
1
dec.py: "local variable 'prop' referenced before assignment"

#53 derrickhlin opened 5 years ago
4
With htslib

#52 DrYak closed 5 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 5 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 opplatek 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