Ka Ming Nip

circular genome contigs not scaffolded properly

4

# Please report - [ ] version of ABySS with `abyss-pe version` ``` abyss-pe (ABySS) 2.3.1 ``` - [ ] distribution of Linux with `lsb_release -d` ``` CentOS Linux release...

integer underflow bug?

6

A user of RNA-Bloom had discovered a bug in ntCard version 1.2.2: https://github.com/bcgsc/RNA-Bloom/issues/43 Here are the first 10 lines from the output histogram file. ``` >head rnabloom_out/rnabloom_k17.hist F1 270 F0...

# Please report - [x] version of RNA-Bloom with `java -jar RNA-Bloom.jar -version` 2.0.0 and earlier versions - [x] version of java with `java -version` jre-11-openjdk-11.0.16.0.8-1.el7_9.x86_64 - [x] exact command...

Hello, I am using Minimap2-2.24 (r1122) to get all-vs-all alignments for a set of sequences, e.g. ``` minimap2 -x ava-ont -f 0.0001 -t 12 -c -X seq.fasta seq.fasta ``` There...

# Please report - [x] version of RNA-Bloom with `java -jar RNA-Bloom.jar -version` 2.0.1 - [x] version of java with `java -version` 20 - [x] exact command used to run...

# Please report - [x] version of RNA-Bloom with `java -jar RNA-Bloom.jar -version` 2.0.1 - [x] version of java with `java -version` 20 - [x] exact command used to run...

Segmentation fault

5

Hi, I am using version 1.3.2 to polish 2 sequences (27903 bp and 4492 bp long) with 835 nanopore reads, but I encountered a segfault after consensus has completed according...

Error when running `Mandalorion_just_align.py`

2

I got this error when running the script on the ONT reads from the paper: ``` Traceback (most recent call last): File "Mandalorion_3_Remove_ISPCR_Sequences.py", line 109, in find_ispcr(path+'/'+input1) File "Mandalorion_3_Remove_ISPCR_Sequences.py", line...

See #90 for example error.