User: harikrishnanc903

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Posts by harikrishnanc903

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Comment: C: How to get strand information in the bed file of macs1.4 peak calling output?
... Thanks. I have one more doubt. Homer does peak calling using the "findpeak".In homer output, we are getting strand information. Is it because homer uses a different algorithm to call the peak? ...
written 12 months ago by harikrishnanc9030
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Comment: C: How to get strand information in the bed file of macs1.4 peak calling output?
... From macs output(bed file), I have contig start and end position. I will use this information to extract the sequence from the genome. I am concerned about whether we need the stand information in the bed file for doing the same. ...
written 12 months ago by harikrishnanc9030
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How to get strand information in the bed file of macs1.4 peak calling output?
... I am new to MACS peak calling. **I am not sure how to get the strand information in the bed output file after running macs tool.** Using the strand information I need to extract the sequence from the genome. Any suggestion to add the strand information in the MACS output? ...
next-gen chip-seq written 12 months ago by harikrishnanc9030 • updated 11 months ago by ZZzzzzhong200
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How to set 1Kb resolution for Hi-C Juicebox Visualization
... I am using Homer tool to identify contact matrix in the genome. For visualization of contact matrics, I am using Juicebox. Using pre I have created Hi-C file from maketagdirectory. **In Jucier tool the pre-command bin the reads at 9 base-pair-delimited resolutions: 2.5M, 1M, 500K, 250K, 100K, 50K, 2 ...
next-gen chip-seq written 13 months ago by harikrishnanc9030
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GlimmerHMM giving Segmentation fault during gene prediction
... I am trying to do gene prediction using GlimmerHMM. Training model was successfully completed but during prediction its giving "segmentation fault". command : glimmerhmm_linux_x86_64 input.fasta -d Directory -o glimmer_results.gff -g Kindly give suggestions. ...
gene glimmerhmm prediction written 23 months ago by harikrishnanc9030

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