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Forum: RNA Sequencing 05-09-2018, 01:09 AM
Replies: 5
Views: 4,957
Posted By sahusarika
cufflinks error

hello asier_gonzalez

I am also struggling with the same problem.
I have used HISAT2 for alignment then i followed samtools view -Sb.
* I have used Picard Tools SortSam (option...
Forum: Bioinformatics 02-24-2017, 09:11 AM
Replies: 3
Views: 4,829
Posted By sahusarika
Hello everyone I hv rnaseq data but reference...

Hello everyone
I hv rnaseq data but reference genome is not available.I want to predict lncRNA from rnaseq data. Pls give ur valuable suggestions.
Forum: Bioinformatics 06-24-2016, 02:38 AM
Replies: 2
Views: 2,087
Posted By sahusarika
RSEM error

I have run the command
/opt/software/trinityrnaseq/util/ --seqType fq --left /home/sahusarikaiiita/trinity_indu/paired_DerivedRapa_R1.fastq --right...
Forum: Bioinformatics 05-10-2016, 07:59 AM
Replies: 1
Views: 793
Posted By sahusarika
Question about wheat RNAseq

Hello all
I hv done reference based assembly of wheat rna seq dataand used bowtie for alignment and mapping. I hv used cuffdiff for DGE and in the result I hv got gene ID of wheat like Trea_4B.......
Forum: Bioinformatics 01-10-2016, 08:42 PM
Replies: 0
Views: 735
Posted By sahusarika
Bowtie index question

Hello all
I am indexing large data of wheat using command bowtie-build --large-index Triticum_aestivum.fasta new_wheat
is has created a file woth index .ebwtl
how to work with .ebwtl files for...
Forum: Bioinformatics 05-24-2015, 11:30 PM
Replies: 7
Views: 1,601
Posted By sahusarika
Trinity Error

Hello All

I am using Trinity for assembly i have prob
Monday, May 25, 2015: 12:29:04 CMD: /home/user/Desktop/sarika/trinityrnaseq-2.0.6/trinity-plugins/fastool/fastool --illumina-trinity...
Forum: Bioinformatics 04-04-2015, 01:17 AM
Replies: 12
Views: 6,716
Posted By sahusarika

Dear all
i an beginner in NGS pls help me.
i hv roche 454 data in 10 set in all different condition and i hv to do trancriptome analysis . i m clc genomic software so pls help me how to proceed...
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