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HI,
I am interested in checking a bat assembly using craq. I installed it using conda. Installation went fine, supposedly, but then it failed when I tried to run it using short-read data that I mappe…
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Hi,
sorry, this is more of a question (or a feature request, we'll see).
We are processing amplicon data, from which we want to trim PCR primers. The amplicon is shorter than the invidual paire…
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Hi @chhylp123,
I have both short reads (Illumina) and long reads (Pacbio HiFi) for parents. Which data do you recommend to use for hifiasm-trio mode? or merge short reads and long reads?
For ya…
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I have been using STAR with Illumina 101bp paired end reads. The first set of
libraries I sequenced work great going through the pipeline, but I have had a
very strange problem with the most rec…
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Hi,
I am trying to run BASALT on several assemblies from different but similar samples.
Say:
sample 1, with assembly1.fa SR1_r1.fq,SR1_r2.fq
sample 2, with assembly2.fa SR2_r1.fq,SR2_r2.fq
…
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Hi Alex,
I tried to map my single-end RNAseq data to reference genome using STAR and the result showed that ~50% were not mapped due to too short length according to the log file produced by STAR. …
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I am using deeptools bamCoverage to analyze short (35-80bp) paired end fragments. All reads in my bam file are properly paired based on samtools flagstat and Picard. Yet bamCoverage extends some a…
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**Is your feature request related to a problem? Please describe.**
I deployed alluxio version 2.9.0 (alluxio/alluxio-dev:2.9.0) with fluid 0.9.1.
Then I used 2 nodes A and B, here is my vdbench tes…
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I ran the QC and alignment modules on my own data with hg28. My original reads are 75bp single-end. After QC, I get most (>90%) of the reads with length >60 bp.
```
#The length distribution of the…
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I am new user of STAR, and I am mapping my miRNA fastq file, and my data is 50bp, HS4000 single end run! but the number of reads unmapped and flagged as short is over 97%. Not sure why, any suggestion…