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Hi, I am using the latest version 0.13, and when mapping reads against co-assembled contigs, no sam file is created. This message appears in the log file:
This is strobealign 0.13.0
Estimated rea…
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```
==> make install
g++-8 -O3 -DNDEBUG -std=c++11 -Isrc -I /usr/local/opt/boost/include -fopenmp -mmacosx-version-min=10.7 -stdlib=libc++ -DUSE_BOOST src/cgi/core_genome_identity.cpp -o fastANI /us…
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### Description of bug
Hey I have been trying to run spades
This is the command i used
spades.py --only-assembler -o SPADES_OUT -1 S17_Trimmed_R1.fq.gz -1 S46_Trimmed_R1.fq.gz -1 S62_Trimmed_R1.f…
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I have a moderately sized genome (1 Gb) plant genome that I'm trying to polish with 60X illumina reads using racon. I know I can use racon_wrapper to split the genome to avoid excessive memory requir…
pjm43 updated
6 years ago
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**Question or Expected behavior**
A clear and concise description of your question or what you expected to happen.
Step 3 03.ctg_graph is not generated with 03.ctg_cns.sh. Error display:[52387 INFO]…
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Command used:
```bash
python3 bcbio_nextgen_install.py \
/mnt/e1000/home/u027/u027/pdutta/bcbio-nextgen/bcbio_data \
--upgrade=stable \
--cores 8 \
--tooldir=/mnt/e1000/home/u027/u027/pdutta/…
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I have a large genome (~5GB) with N50 ~3Mb, and 30X of Hi-C coverage (uniquely mapped reads)
The assembly is stuck at for two days. I moved to assemble the HiFi reads alone without the Hi-C, which I…
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Directory for output is sample01 folder. In there it contains sub folder outs and in that folder another one called features_filtered_bc_matrix. In that folder contains the three zipped files (barcode…
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Dec 05 09:41:16 ..... loading genome
Dec 05 09:42:08 ..... started mapping
Dec 05 09:53:04 ..... finished mapping
Dec 05 09:53:04 ..... finished successfully
2020-12-05 09:53 - INFO - STAR Align…
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### Working with FASTQC
In this assignment, you should gain a greater understanding of how sequence data is stored/formatted and how we assess the quality of our data.
## Learning Goals
- …