User: nasreenbano91

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Posts by nasreenbano91

<prev • 12 results • page 1 of 2 • next >
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SNP annotation for de novo transcriptome data
... I have list of SNP for de novo transcriptome data (plant) . I would like to know the tools to annotate the these SNPs without using the reference genome. I will appreciate if somebody suggests appropriate tool for this purpose.. Many thanks in advance ...
next-gen rna-seq snp written 12 weeks ago by nasreenbano910 • updated 12 weeks ago by finswimmer11k
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ERROR for Trinity abundance_estimates_to_matrix.pl
... Hello, Trying to run abundance_estimates_to_matrix.pl abundance_estimates_to_matrix.pl --est_method RSEM --out_prefix /home/nbri/nasreen/muku/matrix /home/nbri/nasreen/muku/RSEM_M1.genes.results /home/nbri/nasreen/muku/RSEM_M2.genes.results I get this: -reading file: /scratch/sbag/nasre ...
software error R next-gen rna-seq written 10 months ago by nasreenbano910 • updated 9 months ago by WouterDeCoster38k
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Comment: C: align_and_estimate_abundance.pl (rsem-parse-alignments: /lib64/libz.so.1: versio
... [sudo] password for nbri: when i am giving password then below statements are coming- nbri is not in the sudoers file. This incident will be reported. ...
written 11 months ago by nasreenbano910
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Comment: C: align_and_estimate_abundance.pl (rsem-parse-alignments: /lib64/libz.so.1: versio
... i have tried but sudo command does not run in this linux system. is there another command to install zlib-devel? ...
written 11 months ago by nasreenbano910
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Comment: C: align_and_estimate_abundance.pl (rsem-parse-alignments: /lib64/libz.so.1: versio
... i am using- x86_64 x86_64 x86_64 GNU/Linux CentOS release 6.5 (Final) ...
written 11 months ago by nasreenbano910
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align_and_estimate_abundance.pl (rsem-parse-alignments: /lib64/libz.so.1: version `ZLIB_1.2.3.3' not found (required by rsem-parse-alignments))
... Hi I am trying to estimate transcript abundance from a transcriptome generated from paired-end RNA-seq data using Trinity (using `trinityrnaseq-2.2.0`). Trinity.fasta (head) >TRINITY_DN143007_c0_g1_i1 len=314 path=[632:0-108 633:109-132 634:133-313] [-1, 632, 633, 634, -2] TTGGGACTTTTT ...
software error sequence next-gen alignment rna-seq written 11 months ago by nasreenbano910 • updated 11 months ago by Alex Reynolds28k
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Comment: C: Trinity transcript_abundance.pl error using RSEM (65280 at line 766)
... Thanks for your reply h.mon ...
written 11 months ago by nasreenbano910
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align_and_estimate_abundance.pl (Error: reads file does not look like a FASTA file )
... Hi I am trying to estimate transcript abundance from a transcriptome generated from paired-end RNA-seq data using Trinity. However, I am running into a consistent error while using the- The error is as follows: CMD: set -o pipefail && bowtie -f --all --best --strata -m 300 --chunkmbs 512 - ...
next-gen alignment rna-seq sequencing written 11 months ago by nasreenbano910
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Trinity transcript_abundance.pl error using RSEM (65280 at line 766)
... Hi I am trying to estimate transcript abundance from a transcriptome generated from paired-end RNA-seq data using Trinity. However, I am running into a consistent error while using the- perl align_and_estimate_abundance.pl --seqType fastq --left /home/nbri/nasreen/qf_leaf_1.fastq --right /hom ...
assembly next-gen rna-seq sequencing written 11 months ago by nasreenbano910 • updated 11 months ago by h.mon24k
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Answer: A: align_and_estimate_abundance after assembly in Trinity
... The output file of quality filter was not equal that's why this problem was happening. After making R1 and R2 reads equal through merging and splitting script this problem can be easily resolved. ...
written 17 months ago by nasreenbano910

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