User: priya.saxena

gravatar for priya.saxena
Reputation:
0
Status:
New User
Last seen:
2 weeks, 1 day ago
Joined:
1 month, 2 weeks ago
Email:
p***********@mines.sdsmt.edu

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by priya.saxena

<prev • 12 results • page 1 of 2 • next >
0
votes
0
answers
62
views
0
answers
Transcriptome assembly using stringtie and stringtie-merge
... Hello Everyone I am trying to generate transcriptomes using Stringtie and Stringtie-merge tools and getting error like: Details Execution resulted in the following messages: Fatal error: Exit code 1 () Tool generated the following standard error: Error: no valid ID fo ...
rna-seq written 15 days ago by priya.saxena0 • updated 15 days ago by lieven.sterck9.5k
0
votes
0
answers
92
views
0
answers
Comment: C: Best mapping tool for bacterial RNA (paired end sequence)
... Thank you so much. I am extremely sorry for so much trouble. I am new to this field and trying to learn. Thank you so much for your guidance I really appreciate . ...
written 18 days ago by priya.saxena0
0
votes
0
answers
92
views
0
answers
Comment: C: Best mapping tool for bacterial RNA (paired end sequence)
... By compare I meant I have 3 samples and one of them is control, I need to compare the differential genes expression in both the samples with respect to my control. Moreover for each sample I have three replicates which I need to normalize. ...
written 18 days ago by priya.saxena0
0
votes
0
answers
92
views
0
answers
Comment: C: Best mapping tool for bacterial RNA (paired end sequence)
... Thank You so much. can we compare 3 conditions at a time ? I am getting option for comparing two condition at a single time. ...
written 20 days ago by priya.saxena0
0
votes
0
answers
92
views
0
answers
Best mapping tool for bacterial RNA (paired end sequence)
... Hello Everyone, I am trying to analyze rna-seq (paired-end) data generated from illumina, can anyone suggest me which tool for mapping will be best for it, I tried Bowtie-2 but unable to compare the results as I have 3 conditions and three replicates of each sample. Thank You ...
rna-seq written 20 days ago by priya.saxena0
0
votes
0
answers
97
views
0
answers
Comment: C: How to solve the problem related to unmatched chromosome identifiers?
... Thank You so much I will try this and let you know. ...
written 24 days ago by priya.saxena0
0
votes
0
answers
97
views
0
answers
Comment: C: How to solve the problem related to unmatched chromosome identifiers?
... Yes, I used the reference genome and then I did the mapping with Bowtie2 to generate a BAM file. This BAM file and the gtf file from NCBI RefSeq was used as input for Featurecounts. The species used is Desulfovibrio alaskensis G20 from NCBI RefSeq. The FTP link is from where I uploaded GTF and genom ...
written 27 days ago by priya.saxena0
0
votes
0
answers
97
views
0
answers
How to solve the problem related to unmatched chromosome identifiers?
... While using Featurecounts tool, I am getting zero counts for RNA seq reads, It can be due to unmatched chromosome identifiers in BAM and GTF file. Can someone please help me out in making the identifiers same for both the file? https://ibb.co/10rT9tL https://ibb.co/414jkhG Thank You ...
rna-seq written 27 days ago by priya.saxena0
0
votes
0
answers
184
views
0
answers
Comment: C: How to use Bowtie2 for mapping pair end reads and in what format reference genom
... Thank you so much But i am getting this kind of warning in whole file. ...
written 29 days ago by priya.saxena0
3
votes
0
answers
184
views
0
answers
How to use Bowtie2 for mapping pair end reads and in what format reference genome should be used?
... Hello Everyone I am trying to map the pair end reads using Bowtie2, I have formatted the custom reference genome using the format given in link: https://galaxyproject.org/learn/custom-genomes/ (used normalized custom reference file). There is no error while running the Bowtie2 tool but I am getti ...
rna-seq written 29 days ago by priya.saxena0 • updated 29 days ago by _r_am32k

Latest awards to priya.saxena

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1697 users visited in the last hour
_