issues Search Results · repo:morispi/HG-CoLoR language:C++
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inmorispi/HG-CoLoR (press backspace or delete to remove)Hello,
I m running HgColor (installed from the github repo) to correct Nanopore reads (~30x) using Illumina reads (~150x):
/home/bin/HG_CoLoR/HG_CoLoR --longreads ONT_filtered.fasta --shortreads short.fastq ...
- JuliaLopezDelgado
- 2
- Opened on Jan 19, 2021
- #19
Hey @morispi,
I am trying to use HG-Color (thank you for the tool) to correct a 5 mbp stretch of ONT reads from the chromosome 1 of
HG002. It s about 15K reads with an N50 around 50 kbp. I ran the tool ...
- GuillaumeHolley
- 4
- Opened on Sep 29, 2020
- #18
Hello. I am trying to run the following code in a SGE script: HG-CoLoR --longreads $long_reads --shortreads $short_reads
--tmpdir ./tmp --out HGCcor_long_reads.fasta --nproc 48
I get the following error, ...
- JuliaLopezDelgado
- 2
- Opened on Apr 29, 2020
- #17
$ install.sh
$ In file included from src/seedsLinking.cpp:1:0: src/seedsLinking.h:5:27: fatal error: test/testdata.h: No such file or
directory #include test/testdata.h ^ compilation terminated.
Why? ...
- Yunxia-li
- 1
- Opened on Nov 20, 2019
- #16
I am trying to run HG-CoLoR for error correction of PacBio reads with 10x Linked-Reads (short reads). I installed QuorUM
with bioconda. I got this error when running HG-CoLoR:
----- QuorUM ----- perl: ...
- mborche2
- 5
- Opened on Nov 18, 2019
- #15
Which output file should be used for subsequent sequencing? The program only gave me output files in the temporary
directory.
- drs357
- 2
- Opened on May 18, 2019
- #14
Hello,
I m trying to use HG-CoLoR to correct minion reads with illumina reads but i end up with a error at the Blasr step :
[INFO] 2019-04-30T10:47:00 [blasr] started. Warning: resetting nCandidates ...
- Seajull
- 4
- Opened on Apr 30, 2019
- #13
Hi,
I have some difficulties to run HG-CoLoR, it stops after few seconds.
Here is my command (I have about ~100x for short reads) :
HG-CoLoR --longreads $LRFASTA --shortreads $SHORTREAD --out $CORRREADS ...
- MargauxAlison
- 2
- Opened on Feb 13, 2019
- #11
Hi, I am running HG-CoLoR on a local machine, and now it is running since about a week: is that normal?
HG-CoLoR --bestn 15 --kmcmem 90 --nproc 18 --longreads ../ONT_181026.fa --shortreads PE4702_200bp_interlaced.fq ...
- dcopetti
- 3
- Opened on Dec 27, 2018
- #10
Hello,
I am about to run HG-CoLoR, but first I wonder if there is a preferred format/coverage of the Illumina data. I have a
PE 470 bp library (2x260 bp) and a PE 700 bp (2x150). I am going to correct ...
- dcopetti
- 2
- Opened on Dec 20, 2018
- #9
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