User: alhafidzhamdan

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Posts by alhafidzhamdan

<prev • 6 results • page 1 of 1 • next >
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Comment: C: blast error ?creating index
... Sorry that was my bad- there wasn't any space in the actual run. ...
written 6 days ago by alhafidzhamdan0
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Comment: C: blast error ?creating index
... It is 177G . And there is no .nal file. just lots of .nhr .nin .nsq and no .nog .nsd .nsi (as for hg38 when i tested this). ...
written 6 days ago by alhafidzhamdan0
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blast error ?creating index
... Hi all, I have a sequence in fasta format that I want to blast against a tumour genome fasta file. I have attempted to create a database of the tumour genome using this: I am in /gpfs/igmmfs01/eddie/Glioblastoma-WGS/blast SAMPLE_ID=DO10900T makeblastdb -in ${SAMPLE_ID}.fa -title "TCGA1" - ...
genome fasta database blast index written 7 days ago by alhafidzhamdan0 • updated 6 days ago by genomax80k
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Comment: C: Subsetting a set of genes of interest from DESeq2 res
... Thank you! That solved my problem! ...
written 6 months ago by alhafidzhamdan0
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Subsetting a set of genes of interest from DESeq2 res
... Dear all, This is probably a very basic R question but I have done RNA-seq on two groups of cell lines and I want to compare expressions of 50 genes of interest among these two cell lines. I have run DESeq2 and created the results file, and annotated the Ensembl ID with gene symbols. What is the be ...
rnaseq deseq2 gene of interest subsetting written 6 months ago by alhafidzhamdan0 • updated 6 months ago by Haci340
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BWA alignment error
... Hi there, I have searched throughout the site and I still can't find an answer. I have ref genome hg38.fa and bwa index files in the same directory/folder I am trying to align a fastq file but it keeps returning this > [M::bwa_idx_load_from_disk] read 0 ALT contigs [fread] Unexpected end > ...
assembly alignment bwa written 7 months ago by alhafidzhamdan0

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