User: hothriananya

gravatar for hothriananya
hothriananya60
Reputation:
60
Status:
Trusted
Location:
European Union
Last seen:
5 days, 1 hour ago
Joined:
6 years, 3 months ago
Email:
h***********@gmail.com

about me

Posts by hothriananya

<prev • 35 results • page 1 of 4 • next >
0
votes
4
answers
2.3k
views
4
answers
Comment: C: Error in RCircos.Validate.Genomic.Data
... Did you find the solution for this? I am getting a similar error for my data. ...
written 8 months ago by hothriananya60
0
votes
1
answer
1.1k
views
1
answers
Comment: C: Read count difference between STAR and Bowtie
... bowtie ${GENOME}/GRCh38.91 --threads 16 -S -q -n 2 -l 28 -e 70 -S ${FASTQ}.sam STAR --genomeDir ${GENOME} --readFilesIn ${FASTQ1} ${FASTQ2} --readFilesCommand zcat --runThreadN 8 >> STAR_progress.txt ...
written 9 months ago by hothriananya60 • updated 9 months ago by WouterDeCoster40k
0
votes
1
answer
1.1k
views
1
answers
Comment: C: Read count difference between STAR and Bowtie
... miRdeep2 is very specific to miRNA only, I am looking for small RNA expression ( rRNA, snoRNa etc) ...
written 9 months ago by hothriananya60
0
votes
1
answer
1.1k
views
1
answers
Comment: C: Read count difference between STAR and Bowtie
... I found huge differences in counts from both the aligner, Below are the read counts for few miRs. Read counts from STAR aligner are higher than the Bowtie aligner read counts. These miRs are expressed in one of the control samples. STAR Bowtie MIR130A 117.49 73 MIR103B1 5776.49 303.77 ...
written 9 months ago by hothriananya60 • updated 9 months ago by WouterDeCoster40k
0
votes
1
answer
1.1k
views
1
answers
Comment: C: Read count difference between STAR and Bowtie
... This is small RNAseq data, I used bowtie to align short reads. ...
written 9 months ago by hothriananya60
2
votes
1
answer
1.1k
views
5 follow
1
answer
Read count difference between STAR and Bowtie
... Hi, I aligned a small RNA seq data with Bowtie and STAR and I observed that there is a large difference between the read counts from both the aligners for the same miRNA from the same sample. I further checked the bam files of the same sample from both the aligners and found many differences. I am ...
smallrna mirna-seq bowtie star written 9 months ago by hothriananya60 • updated 9 months ago by ATpoint22k
1
vote
1
answer
413
views
7 follow
1
answer
Recommendation for statistics book
... Hi, Could anyone suggest a good statistics book for non statistician to understand clustering, PCA plots and tsne plots. Thank you, Hothri ...
statistics written 11 months ago by hothriananya60 • updated 11 months ago by Jean-Karim Heriche20k
0
votes
2
answers
910
views
2
answers
Comment: C: kallisto pseudoaligned bam files to IGV
... Hi, Yes, I identified its an alignment problem. I re-built Kallisto index with cDNA fasta file and realigned the fastqs with genome option and now I can view the whole genome. ...
written 12 months ago by hothriananya60
0
votes
2
answers
910
views
2
answers
Comment: A: kallisto pseudoaligned bam files to IGV
... Hi, Thank you for your suggestions, I figured out why I cant view pseudobam files in IGV. I have to upload cdna fasta file to the igv to view bam files. I also tried --genomebam option but it didnot work and i am figuring out why. The only drawback of viewing transcript pseudobam is I can only v ...
written 14 months ago by hothriananya60
0
votes
2
answers
910
views
2
answers
kallisto pseudoaligned bam files to IGV
... Hi, has anyone found the solution for this? I am running kallisto with --genomebam option along with the --chromosomes, The bam file generated is already sorted by kallisto and indexed so I think I do not have to sort it again. I uploaded these bam files to the IGV and i cant see any alignment an ...
kallisto rna-seq igv written 14 months ago by hothriananya60

Latest awards to hothriananya

Popular Question 5 months ago, created a question with more than 1,000 views. For Problems with cuffdiff
Popular Question 6 months ago, created a question with more than 1,000 views. For Problems with cuffdiff
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Problems with cuffdiff
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Problems with cuffdiff
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Mapping Genes On Chromosomes
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Mapping Genes On Chromosomes
Student 5.0 years ago, asked a question with at least 3 up-votes. For Combing two microarray datasets

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 910 users visited in the last hour