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I ran this command to quantify transcript abundances:
`kallisto quant -i Data/Transcriptome/Sequence/Indexes/Kallisto/knownGene.idx -o Data/Samples/ESC_Rep1 --single -l 200 -s 20 Data/Samples/ESC_R…
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Hi,
I'm trying to run Tracer on my work cluster. It seems to run fine up until the part where it is quantifying with kallisto (or perhaps just after). Below is the last part of the error message. A…
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I have downloaded source code of version 0.42.4 for multithreaded pseudoalignment but I still received this error while running:
Error: pseudobam is not compatible with running on many threads.
Have…
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**Description of bug:**
When I run MultiQC it reports the following report at first:
```
No MultiQC config found:~/anaconda2/lib/python2.7/site-packages/multiqc-1.0.dev0-py2.7.egg/multiqc_config.ya…
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Hi-
I'm poking around with with kallisto/pizzly in bcbio and running into an error with the quantification step in both stable and dev releases. Running 3 sample analyses on a cluster and either 1 …
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Dear Jon,
I looked thoroughly at my previous funannotate results (derived a month ago) and found that **funannotate-p2g.py** seems to fail. As a result, finally, out of 500,000 proteins, tblastn ha…
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Hi,
I had this issue by using the example datas:
```
user1@comp1[example] sudo karp -c quantify -r reference.fasta -i reference.index -f simulated.data.fastq.gz -o simulated.results -t refere…
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Module request: kallisto
ewels updated
7 years ago
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Hi,
I am running tracer on the example cell1_1.fastq and cell1_2.fastq that come with the software package. All the previous steps are successfully performed including Kallisto. Then tracer throws an …
zji90 updated
7 years ago
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I tried to run kallisto but get followling error. I need a help
prabinb@biolab:/data/Prabin_trinity/Jonsok_complete_trinity> /data/trinityrnaseq-2.1.1/util/align_and_estimate_abundance.pl --transcrip…