COMBINE-lab cuttlefish issues

COMBINE-lab / cuttlefish

Building the compacted de Bruijn graph efficiently from references or reads.

BSD 3-Clause "New" or "Revised" License

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issues

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KMC compilation error when compiling from source

#45 Sawwave opened 1 month ago
8
separate program to transform fasta output to GFA output

#44 jianshu93 closed 1 month ago
0
Merge develop into piscem-hotfix

#43 rob-p opened 4 months ago
0
How to output maximal unitigs?

#42 dwpeng closed 4 months ago
2
Using $TMPDIR as default temp working folder?

#41 tseemann opened 4 months ago
2
BUILD_COMMAND in CMakeLists.txt

#40 wdlingit closed 7 months ago
3
update to KMC fork to eliminate patching and allow compilation on AMD w/SIMD

#39 ggraham opened 7 months ago
3
arm64 Cuttlefish on bioconda

#38 aryakaul opened 11 months ago
4
Reduced GFA output --> GFA1/GFA2 Output

#37 aryakaul opened 1 year ago
1
Unitigs are missing kmers

#36 sebschmi closed 1 year ago
4
Complemental k-mers are not handled correctly

#35 sebschmi closed 1 year ago
5
Cuttlefish 1 - Color by file instead of record

#34 aryakaul closed 1 year ago
3
Fix: assert kmer len >= and not == on L283

#33 theJasonFan closed 1 year ago
0
Different version when installing through Conda?

#32 iamdeaardappel closed 1 year ago
3
Would you mind providing a more detail on assembly ?

#31 deyuanyang opened 1 year ago
2
infinite loop

#30 rchikhi closed 1 year ago
3
Multiple different crashes (CThreadCancellationException and Cannot open temporary file)

#29 rlorigro closed 1 year ago
10
Patch step error while linking library with CMake

#28 rlorigro opened 1 year ago
3
is there a way to get the kmer counts of the kmers in the produced unitigs?

#27 shokrof opened 1 year ago
4
merge master changes back to dev

#26 rob-p closed 1 year ago
0
Output polyN stretches in `.cf_seq` file

#25 theJasonFan closed 1 year ago
6
Building on Apple M1 / M2 Silicon

#24 theJasonFan closed 1 year ago
0
Using Cuttlefish2 with Corrected Long Reads

#23 jwalewski closed 1 year ago
2
Extra large kmer

#22 apaytuvi opened 2 years ago
6
tools for the result of cuttlefish?

#21 shenweima closed 5 months ago
1
docker image?

#20 shenweima closed 2 years ago
2
Potential arm support?

#19 michaelbarton opened 2 years ago
3
exception when trying to use the software

#18 PandorasRed closed 2 years ago
3
problem with installing cuttlefish from the source

#17 PandorasRed closed 2 years ago
8
Develop

#16 jamshed closed 2 years ago
0
Getting "Error while writing to temporary file 0" error

#14 shokrof closed 2 years ago
5
KMC files are written to the current directory even when a separate working directory is given

#13 jnalanko closed 2 years ago
2
Building fails for k = 13 or larger

#12 jnalanko closed 2 years ago
3
gzipped input?

#11 ctb closed 2 years ago
2
Cuttlefish 2.0 runable?

#10 rickbeeloo closed 2 years ago
5
Fix GFA1 path overlaps, revisited

#9 jurikuronen closed 2 years ago
7
Fix GFA1 path overlaps

#8 jurikuronen closed 3 years ago
1
Cuttlefish as C++ API / header library?

#7 Krannich479 opened 3 years ago
2
Incorrect link between node and contigs?

#6 rickbeeloo closed 3 years ago
8
question on graph compaction

#5 kevyin opened 3 years ago
1
Advice to do this for a large collection of genomes

#4 rickbeeloo closed 2 years ago
4
Empty GFA (and temporary file delete error)

#3 rickbeeloo closed 5 months ago
6
gfa visualization

#2 EA2106-Universite-Francois-Rabelais closed 4 years ago
6
Develop

#1 rob-p closed 4 years ago
0