User: archana.bioinfo87

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Posts by archana.bioinfo87

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Comment: C: How to convert paired end data to single end?
... Thanks any other tool as well. ...
written 19 days ago by archana.bioinfo87100
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How to convert paired end data to single end?
... Hi, Can anyone help me out to find a tool or software to convert paired-end data to single-end. I have more than 10k paired end data. Thanks ...
rna-seq written 19 days ago by archana.bioinfo87100 • updated 19 days ago by genomax63k
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Comment: C: CIRCexplorer2 for paired end data
... Thanks for the reply. I got the answer that a. You could offer multiple fastq files (or compressed files) separated or comma. b. Only single-read RNA-seq is supported. It is recommended to convert paired-end RNA-seq to single-read RNA-seq before alignment ...
written 4 weeks ago by archana.bioinfo87100
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Comment: C: CIRCexplorer2 for paired end data
... CIRCexplorer2 align -G /mnt/c/Users/ark446/share/hg19_kg.gtf -i /home/archana87/bow_tie_build_hg19/hg19 -j /home/archana87/bowtie2_index/hg19 -f Sample.fastq > CIRCexplorer2_align.log I am wondering for paired-end data. Maybe it is a silly question but I am confused. ...
written 4 weeks ago by archana.bioinfo87100 • updated 4 weeks ago by RamRS20k
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CIRCexplorer2 for paired end data
... Hi, As I am trying to use `CIRCexplorer2` but little bit confuse that what command is perfect for my paired-end data. If anyone has some hint please let me know. Any help is much appreciated. Thanks ...
tool rna-seq written 4 weeks ago by archana.bioinfo87100 • updated 4 weeks ago by ATpoint14k
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Comment: C: In TCGA: R1 and R2 files are missing in fastq.gz
... Yes, thanks for this hint. I solved my problem. ...
written 5 months ago by archana.bioinfo87100
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Comment: C: In TCGA: R1 and R2 files are missing in fastq.gz
... I downloaded from this link https://portal.gdc.cancer.gov/legacy-archive/search/f As, I have access for controlled data sets. ...
written 5 months ago by archana.bioinfo87100
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In TCGA: R1 and R2 files are missing in fastq.gz
... Hi, I downloaded some RNA-seq data from TCGA. After doing untar I realized the R1 and R2 fastq files are not there. For example UNCID_2210756.2c113ebf-70de-4752-81de-a873f4f3db64.110324_UNC6-RDR300211_00088_FC_7090HAAXX_4.tar To untar this I used command "tar -xvf UNCI*.tar" And got a single fas ...
assembly next-gen rna-seq written 5 months ago by archana.bioinfo87100
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Comment: C: what next after DEGs?
... Its all depend on your work objectives because you can do "n" number of analysis in research. ...
written 5 months ago by archana.bioinfo87100
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Comment: C: sequence alignment of protein sequence
... Use standalone blast where you can make 1890 protein as a database (using makeblastdb) and rest 3 protein as a query. ...
written 5 months ago by archana.bioinfo87100

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