network profile
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| visits | member for | 11 months |
| seen | Jul 2 '12 at 18:21 | |
| stats | profile views | 2 |
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Jun 6 |
comment |
What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? @JoelW. No animals have pairs of body parts for example 1. I have 2 types of body parts: parts that are clearly from species 1, parts that are clearly from species 2,(none that overlap across species, each type is detected as exclusive to the species it is exclusive to.) Since an individual Spp2 traits are 1 ear and 1 wing(exclusively)so the min number of whole spp2's are 8 (8 individuals have 1 wing). the Maximum (assume each body part comes from a separate individual) is 8 wings +6 ears = 14 possible individuals of spp2. |
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Jun 5 |
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What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? The total # of reads from any metagenome are run against a set of specific HMM profiles.a hit read(count) of extracted DNA is defined as a hit when an alignment is made that fits the HMMprofile above a certain threshold.Every metagenome is different, a different number of total reads are sequenced. counts are taken only from unique reads, the sampling effort is uniform(same hmms are run on all metagenomes) but yield different counts. you cannot normalize across metagenomes because that would skew the biological meaning of the sample, hence the counts and use of non-parametric methods. |
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Jun 5 |
revised |
What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? Added an extra example. |
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Jun 5 |
revised |
What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? Added an extra example. |
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Jun 5 |
comment |
What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? Yes, sorry I mean species. When I say I identify each part as belonging to a specific species I mean I know the eyes, noses and legs (any eye nose or leg i find) belongs to species 1, the more eyes means I have a bigger number of creatures belonging to Species 1, the more traits mean I have a larger range to predict the number. |
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Jun 5 |
revised |
What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? term substitution |
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Jun 4 |
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What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? @whuber "body parts" are identified by pairing predefined HMM profiles with DNA sequences from a location. If the profile matches the sequence above a certain threshold it is assigned as a hit.HMM profiles are designed as specific to specific genes, so they don't overlap with others. "Counts" are simply the total number of unique hits. Several HMMs can be assigned to a specific Operon(group of genes that work and co-occur together)in my case, operons don't contain repeat HMMs, so each HMM/"trait" only occurs once per operon/"animal" but operons might contain uneven #'s of HMMs/"traits". |
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Jun 4 |
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What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? Please see the Question for further edits/explanation. I'm pretty stumped with this one. The Idea is to estimate a number(then the proportion) of operon subtypes from a group of detected protein HMMs in samples taken from different locations, then compare those locations. I think I know how to compare locations, I'd like to see if I can properly estimate #'s of the subtypes, (biologically important in comparison of locations) these are counts, I don't think i can compare the values of those counts, because each Location sample cannot be accurately normalized to the other locations. |
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Jun 4 |
awarded | Editor |
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Jun 4 |
revised |
What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? Improved Explanation |
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Jun 4 |
asked | What is the correct way of estimating the proportion of individuals in a population from a count of their individual parts? |
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Jun 1 |
comment |
Estimating Diversity of operon types using HMMs across metagenomes: Mann-Whitney? Kruskal-Wallis? or other? OK :) I want to know where the Boundary is. A friend suggested the Bonferroni correction. I'm not sure how to implement that though. |
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Jun 1 |
awarded | Student |
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May 31 |
asked | Estimating Diversity of operon types using HMMs across metagenomes: Mann-Whitney? Kruskal-Wallis? or other? |
